-- dump date 20111121_014516 -- class Genbank::misc_feature -- table misc_feature_note -- id note 882884000001 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 882884000002 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of...; Region: D-glucarate_dehydratase; cd03323 882884000003 active site 882884000004 tetramer interface [polypeptide binding]; other site 882884000005 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 882884000006 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of...; Region: D-glucarate_dehydratase; cd03323 882884000007 active site 882884000008 tetramer interface [polypeptide binding]; other site 882884000009 Glycerate kinase family; Region: Gly_kinase; cl00841 882884000010 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 882884000011 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 882884000012 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 connected by an extended linker. The...; Region: HAMP; cl01054 882884000013 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 trans-...; Region: HisKA; cd00082 882884000014 dimer interface [polypeptide binding]; other site 882884000015 phosphorylation site [posttranslational modification] 882884000016 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884000017 ATP binding site [chemical binding]; other site 882884000018 Mg2+ binding site [ion binding]; other site 882884000019 G-X-G motif; other site 882884000020 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 882884000021 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884000022 active site 882884000023 phosphorylation site [posttranslational modification] 882884000024 intermolecular recognition site; other site 882884000025 dimerization interface [polypeptide binding]; other site 882884000026 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 882884000027 putative binding surface; other site 882884000028 active site 882884000029 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 882884000030 TRAM domain; Region: TRAM; cl01282 882884000031 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 882884000032 S-adenosylmethionine binding site [chemical binding]; other site 882884000033 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 882884000034 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 882884000035 synthetase active site [active] 882884000036 NTP binding site [chemical binding]; other site 882884000037 metal binding site [ion binding]; metal-binding site 882884000038 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...; Region: TGS_RelA_SpoT; cd01668 882884000039 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 882884000040 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 882884000041 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 882884000042 CTP synthetase; Validated; Region: pyrG; PRK05380 882884000043 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...; Region: CTGs; cd03113 882884000044 Catalytic site [active] 882884000045 Active site [active] 882884000046 UTP binding site [chemical binding]; other site 882884000047 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 882884000048 active site 882884000049 putative oxyanion hole; other site 882884000050 catalytic triad [active] 882884000051 enolase; Provisional; Region: eno; PRK00077 882884000052 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 882884000053 dimer interface [polypeptide binding]; other site 882884000054 metal binding site [ion binding]; metal-binding site 882884000055 substrate binding pocket [chemical binding]; other site 882884000056 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 882884000057 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 882884000058 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; cl14056 882884000059 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 882884000060 active site 882884000061 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 882884000062 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 882884000063 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 882884000064 FAD binding pocket [chemical binding]; other site 882884000065 FAD binding motif [chemical binding]; other site 882884000066 catalytic residues [active] 882884000067 NAD binding pocket [chemical binding]; other site 882884000068 phosphate binding motif [ion binding]; other site 882884000069 beta-alpha-beta structure motif; other site 882884000070 sulfite reductase subunit beta; Provisional; Region: PRK13504 882884000071 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 882884000072 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 882884000073 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 882884000074 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 882884000075 Active Sites [active] 882884000076 pathogenicity island 1 protein SopD2; Provisional; Region: PRK15380; cl14701 882884000077 Salmonella outer protein D; Region: SopD; pfam11047 882884000078 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 882884000079 helicase Cas3; Provisional; Region: PRK09694 882884000080 alkaline phosphatase isozyme conversion aminopeptidase; Provisional; Region: PRK10199 882884000081 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 882884000082 metal binding site [ion binding]; metal-binding site 882884000083 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 882884000084 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 882884000085 Active Sites [active] 882884000086 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 882884000087 CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which...; Region: CysN_ATPS; cd04166 882884000088 CysD dimerization site [polypeptide binding]; other site 882884000089 G1 box; other site 882884000090 putative GEF interaction site [polypeptide binding]; other site 882884000091 GTP/Mg2+ binding site [chemical binding]; other site 882884000092 Switch I region; other site 882884000093 G2 box; other site 882884000094 G3 box; other site 882884000095 Switch II region; other site 882884000096 G4 box; other site 882884000097 G5 box; other site 882884000098 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...; Region: CysN_NodQ_II; cd03695 882884000099 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...; Region: CysN_NoDQ_III; cd04095 882884000100 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation...; Region: APSK; cd02027 882884000101 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 882884000102 ligand-binding site [chemical binding]; other site 882884000103 Protein of unknown function (DUF3561); Region: DUF3561; cl08142 882884000104 Septum formation initiator; Region: DivIC; cl11433 882884000105 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 882884000106 substrate binding site [chemical binding]; other site 882884000107 dimer interface [polypeptide binding]; other site 882884000108 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...; Region: MECDP_synthase; cd00554 882884000109 homotrimer interaction site [polypeptide binding]; other site 882884000110 zinc binding site [ion binding]; other site 882884000111 CDP-binding sites; other site 882884000112 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 882884000113 PseudoU_synth_EcTruD: Pseudouridine synthase, TruD family. This group consists of bacterial pseudouridine synthases similar to Escherichia coli TruD. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_EcTruD; cd02575 882884000114 Permutation of conserved domain; other site 882884000115 active site 882884000116 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 882884000117 Survival protein SurE; Region: SurE; cl00448 882884000118 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 882884000119 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 882884000120 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 882884000121 putative peptidoglycan binding site; other site 882884000122 Peptidase family M23; Region: Peptidase_M23; pfam01551 882884000123 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 882884000124 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 882884000125 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 882884000126 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 882884000127 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...; Region: Sigma70_r4; cd06171 882884000128 DNA binding residues [nucleotide binding] 882884000129 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 882884000130 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 882884000131 Flavoprotein; Region: Flavoprotein; cl08021 882884000132 Transcriptional regulators [Transcription]; Region: MarR; COG1846 882884000133 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884000134 Transcriptional regulator [Transcription]; Region: LysR; COG0583 882884000135 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884000136 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 882884000137 putative effector binding pocket; other site 882884000138 dimerization interface [polypeptide binding]; other site 882884000139 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 882884000140 putative substrate translocation pore; other site 882884000141 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 882884000142 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 882884000143 MutS domain I; Region: MutS_I; pfam01624 882884000144 MutS domain II; Region: MutS_II; pfam05188 882884000145 MutS family domain IV; Region: MutS_IV; pfam05190 882884000146 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 882884000147 Walker A/P-loop; other site 882884000148 ATP binding site [chemical binding]; other site 882884000149 Q-loop/lid; other site 882884000150 ABC transporter signature motif; other site 882884000151 Walker B; other site 882884000152 D-loop; other site 882884000153 H-loop/switch region; other site 882884000154 Integrase core domain; Region: rve; cl01316 882884000155 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 882884000156 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 882884000157 multiple promoter invertase; Provisional; Region: mpi; PRK13413 882884000158 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 882884000159 catalytic residues [active] 882884000160 catalytic nucleophile [active] 882884000161 Presynaptic Site I dimer interface [polypeptide binding]; other site 882884000162 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 882884000163 Synaptic Flat tetramer interface [polypeptide binding]; other site 882884000164 Synaptic Site I dimer interface [polypeptide binding]; other site 882884000165 DNA binding site [nucleotide binding] 882884000166 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 882884000167 DNA-binding interface [nucleotide binding]; DNA binding site 882884000168 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 882884000169 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 882884000170 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 882884000171 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 882884000172 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 882884000173 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; cl01116 882884000174 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 882884000175 Protein of unknown function (DUF796); Region: DUF796; cl01226 882884000176 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 882884000177 active site flap/lid [active] 882884000178 nucleophilic elbow; other site 882884000179 catalytic triad [active] 882884000180 MbeB-like, N-term conserved region; Region: MbeB_N; pfam04837 882884000181 Transposase, Mutator family; Region: Transposase_mut; pfam00872 882884000182 Transposase; Region: DEDD_Tnp_IS110; pfam01548 882884000183 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 882884000184 InvH outer membrane lipoprotein; Region: InvH; cl04716 882884000185 transcriptional regulator InvF; Provisional; Region: PRK15340 882884000186 type III secretion system outer membrane pore InvG; Provisional; Region: PRK15339 882884000187 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 882884000188 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 882884000189 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 882884000190 type III secretion system regulator InvE; Provisional; Region: PRK15338 882884000191 HrpJ-like domain; Region: HrpJ; pfam07201 882884000192 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 882884000193 type III secretion system protein InvA; Provisional; Region: PRK15337 882884000194 Invasion protein B family; Region: Invas_SpaK; cl04129 882884000195 ATP synthase SpaL; Validated; Region: PRK08149 882884000196 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 882884000197 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884000198 Walker A motif; other site 882884000199 ATP binding site [chemical binding]; other site 882884000200 Walker B motif; other site 882884000201 Salmonella surface presentation of antigen gene type M protein; Region: SPAM; cl03442 882884000202 Surface presentation of antigens protein; Region: SPAN; cl03629 882884000203 type III secretion system protein SpaO; Validated; Region: PRK08158 882884000204 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 882884000205 FliP family; Region: FliP; cl00593 882884000206 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 882884000207 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 882884000208 FlhB HrpN YscU SpaS Family; Region: Bac_export_2; pfam01312 882884000209 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 882884000210 chaperone protein SicA; Provisional; Region: PRK15331 882884000211 Tetratricopeptide repeat; Region: TPR_3; pfam07720 882884000212 Tetratricopeptide repeat; Region: TPR_3; pfam07720 882884000213 pathogenicity island 1 effector protein SipB; Provisional; Region: PRK15374 882884000214 Salmonella-Shigella invasin protein C (IpaC_SipC); Region: IpaC_SipC; cl10712 882884000215 Invasion plasmid antigen IpaD; Region: IpaD; cl05827 882884000216 pathogenicity island 1 effector protein SipA; Provisional; Region: PRK15376 882884000217 Phosphopantetheine attachment site; Region: PP-binding; cl09936 882884000218 chaperone protein SicP; Provisional; Region: PRK15329 882884000219 SicP binding; Region: SicP-binding; pfam09119 882884000220 GTPase-activating protein (GAP) domain found in bacterial cytotoxins, ExoS, SptP, and YopE. Part of protein secretion system; stimulates Rac1- dependent cytoskeletal changes that promote bacterial internalization; Region: ToxGAP; cd00219 882884000221 switch II binding region; other site 882884000222 Rac1 P-loop interaction site [polypeptide binding]; other site 882884000223 GTP binding residues [chemical binding]; other site 882884000224 switch I binding region; other site 882884000225 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 882884000226 N-acetyl-D-glucosamine binding site [chemical binding]; other site 882884000227 catalytic residue [active] 882884000228 invasion protein regulator; Provisional; Region: PRK12370 882884000229 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...; Region: trans_reg_C; cd00383 882884000230 DNA binding site [nucleotide binding] 882884000231 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 882884000232 binding surface 882884000233 TPR motif; other site 882884000234 transcriptional regulator HilD; Provisional; Region: PRK15185 882884000235 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882884000236 Type III secretion system protein PrgH-EprH (PrgH); Region: PrgH; cl12363 882884000237 type III secretion system protein PrgH/EprH; Region: PrgH; TIGR02554 882884000238 Type III secretion needle MxiH like; Region: MxiH; cl09641 882884000239 type III secretion system needle complex protein PrgJ; Provisional; Region: PRK15325 882884000240 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 882884000241 Bacterial type III secretion apparatus protein (OrgA_MxiK); Region: OrgA_MxiK; cl09716 882884000242 invasion protein OrgB; Provisional; Region: PRK15322 882884000243 putative type III secretion system effector protein OrgC; Provisional; Region: PRK15321 882884000244 transcriptional regulator SirC; Provisional; Region: PRK15044 882884000245 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882884000246 transcriptional activator SprB; Provisional; Region: PRK15320 882884000247 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...; Region: LuxR_C_like; cl10457 882884000248 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...; Region: TM_ABC_iron-siderophores_like; cd06550 882884000249 ABC-ATPase subunit interface; other site 882884000250 dimer interface [polypeptide binding]; other site 882884000251 putative PBP binding regions; other site 882884000252 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...; Region: TM_ABC_iron-siderophores_like; cd06550 882884000253 ABC-ATPase subunit interface; other site 882884000254 dimer interface [polypeptide binding]; other site 882884000255 putative PBP binding regions; other site 882884000256 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 882884000257 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-...; Region: ABC_Metallic_Cations; cd03235 882884000258 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 882884000259 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 882884000260 metal binding site [ion binding]; metal-binding site 882884000261 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 882884000262 formate hydrogenlyase transcriptional activator FhlA; Provisional; Region: PRK15429 882884000263 GAF domain; Region: GAF; cl00853 882884000264 GAF domain; Region: GAF; cl00853 882884000265 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...; Region: AAA; cd00009 882884000266 Walker A motif; other site 882884000267 ATP binding site [chemical binding]; other site 882884000268 Walker B motif; other site 882884000269 arginine finger; other site 882884000270 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 882884000271 dimerization interface [polypeptide binding]; other site 882884000272 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 882884000273 ATP binding site [chemical binding]; other site 882884000274 Hydrogenase formation hypA family; Region: HypD; cl12072 882884000275 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 882884000276 HupF/HypC family; Region: HupF_HypC; cl00394 882884000277 hydrogenase nickel incorporation protein HypB; Provisional; Region: PRK10463 882884000278 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 882884000279 Hydrogenase expression/synthesis hypA family; Region: HypA; cl00418 882884000280 Transcriptional repressor of hyc and hyp operons; Region: HycA_repressor; cl08095 882884000281 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 882884000282 formate hydrogenlyase subunit 3; Reviewed; Region: PRK08042 882884000283 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 882884000284 NADH dehydrogenase; Region: NADHdh; cl00469 882884000285 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl00539 882884000286 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 882884000287 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 882884000288 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 882884000289 4Fe-4S binding domain; Region: Fer4; cl02805 882884000290 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 882884000291 Formate hydrogenlyase maturation protein HycH; Region: HycH; cl06472 882884000292 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 882884000293 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 882884000294 nickel binding site [ion binding]; other site 882884000295 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 882884000296 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 882884000297 Acylphosphatase; Region: Acylphosphatase; cl00551 882884000298 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 882884000299 HypF finger; Region: zf-HYPF; pfam07503 882884000300 HypF finger; Region: zf-HYPF; pfam07503 882884000301 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 882884000302 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 882884000303 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 882884000304 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 882884000305 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 882884000306 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 882884000307 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...; Region: rubredoxin; cd00730 882884000308 iron binding site [ion binding]; other site 882884000309 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 882884000310 GAF domain; Region: GAF; cl00853 882884000311 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...; Region: AAA; cd00009 882884000312 Walker A motif; other site 882884000313 ATP binding site [chemical binding]; other site 882884000314 Walker B motif; other site 882884000315 arginine finger; other site 882884000316 D-arabinose 5-phosphate isomerase; Provisional; Region: gutQ; PRK11543 882884000317 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 5-...; Region: SIS_Kpsf; cd05014 882884000318 putative active site [active] 882884000319 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 882884000320 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 882884000321 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884000322 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 882884000323 Glucitol operon activator protein (GutM); Region: GutM; cl01890 882884000324 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 882884000325 Sorbitol 6-phosphate dehydrogenase (SDH), classical (c) SDRs; Region: SDH_SDR_c_like; cd05322 882884000326 putative NAD(P) binding site [chemical binding]; other site 882884000327 active site 882884000328 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 882884000329 IIBC component; Region: EIIBC-GUT; TIGR00825 882884000330 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 882884000331 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 882884000332 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; cl01515 882884000333 lytic murein transglycosylase; Region: MltB_2; TIGR02283 882884000334 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 882884000335 N-acetyl-D-glucosamine binding site [chemical binding]; other site 882884000336 catalytic residue [active] 882884000337 Competence-damaged protein; Region: CinA; cl00666 882884000338 recombinase A; Provisional; Region: recA; PRK09354 882884000339 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 882884000340 hexamer interface [polypeptide binding]; other site 882884000341 Walker A motif; other site 882884000342 ATP binding site [chemical binding]; other site 882884000343 Walker B motif; other site 882884000344 RecX family; Region: RecX; cl00936 882884000345 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884000346 Walker A motif; other site 882884000347 ATP binding site [chemical binding]; other site 882884000348 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 882884000349 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation...; Region: AlaRS_core; cd00673 882884000350 active site 882884000351 motif 3; other site 882884000352 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 882884000353 DHHA1 domain; Region: DHHA1; pfam02272 882884000354 Global regulator protein family; Region: CsrA; cl00670 882884000355 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 882884000356 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 882884000357 motif II; other site 882884000358 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 882884000359 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl01099 882884000360 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 882884000361 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 882884000362 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 882884000363 putative substrate translocation pore; other site 882884000364 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 882884000365 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 882884000366 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884000367 Transcriptional regulators [Transcription]; Region: MarR; COG1846 882884000368 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 882884000369 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884000370 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 882884000371 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...; Region: TM_PBP2; cd06261 882884000372 dimer interface [polypeptide binding]; other site 882884000373 conserved gate region; other site 882884000374 putative PBP binding loops; other site 882884000375 ABC-ATPase subunit interface; other site 882884000376 glycine betaine transporter ATP-binding subunit; Provisional; Region: PRK10070 882884000377 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 882884000378 Walker A/P-loop; other site 882884000379 ATP binding site [chemical binding]; other site 882884000380 Q-loop/lid; other site 882884000381 ABC transporter signature motif; other site 882884000382 Walker B; other site 882884000383 D-loop; other site 882884000384 H-loop/switch region; other site 882884000385 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 882884000386 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 882884000387 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 882884000388 dimer interface [polypeptide binding]; other site 882884000389 putative radical transfer pathway; other site 882884000390 diiron center [ion binding]; other site 882884000391 tyrosyl radical; other site 882884000392 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 882884000393 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 882884000394 Class I ribonucleotide reductase; Region: RNR_I; cd01679 882884000395 active site 882884000396 dimer interface [polypeptide binding]; other site 882884000397 catalytic residues [active] 882884000398 effector binding site; other site 882884000399 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 882884000400 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 882884000401 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...; Region: NrdH; cd02976 882884000402 catalytic residues [active] 882884000403 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 882884000404 Protein of unknown function (DUF2002); Region: DUF2002; cl11580 882884000405 Protein of unknown function (DUF1144); Region: DUF1144; pfam06610 882884000406 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 882884000407 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 882884000408 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 882884000409 active site residue [active] 882884000410 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 882884000411 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 882884000412 putative DNA binding site [nucleotide binding]; other site 882884000413 putative Zn2+ binding site [ion binding]; other site 882884000414 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 882884000415 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 882884000416 BON domain; Region: BON; cl02771 882884000417 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 882884000418 putative peptidoglycan binding site; other site 882884000419 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 882884000420 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882884000421 DNA-binding site [nucleotide binding]; DNA binding site 882884000422 FCD domain; Region: FCD; cl11656 882884000423 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 882884000424 Amino acid permease; Region: AA_permease; pfam00324 882884000425 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 882884000426 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 882884000427 inhibitor-cofactor binding pocket; inhibition site 882884000428 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884000429 catalytic residue [active] 882884000430 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 882884000431 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 882884000432 tetramerization interface [polypeptide binding]; other site 882884000433 NAD(P) binding site [chemical binding]; other site 882884000434 catalytic residues [active] 882884000435 Predicted dehydrogenase [General function prediction only]; Region: COG0579 882884000436 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 882884000437 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG...; Region: CAS_like; cd00250 882884000438 substrate binding pocket [chemical binding]; other site 882884000439 active site 882884000440 iron coordination sites [ion binding]; other site 882884000441 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 882884000442 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 882884000443 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 882884000444 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884000445 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 882884000446 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884000447 active site 882884000448 phosphorylation site [posttranslational modification] 882884000449 intermolecular recognition site; other site 882884000450 dimerization interface [polypeptide binding]; other site 882884000451 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...; Region: trans_reg_C; cd00383 882884000452 DNA binding site [nucleotide binding] 882884000453 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 882884000454 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 trans-...; Region: HisKA; cl00080 882884000455 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884000456 ATP binding site [chemical binding]; other site 882884000457 Mg2+ binding site [ion binding]; other site 882884000458 G-X-G motif; other site 882884000459 High-affinity nickel-transport protein; Region: NicO; cl00964 882884000460 antimicrobial resistance protein Mig-14; Provisional; Region: PRK15312 882884000461 Protein of unknown function (DUF535); Region: DUF535; cl01128 882884000462 secreted effector protein PipB2; Provisional; Region: PRK15196 882884000463 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 882884000464 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 882884000465 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 882884000466 outer membrane receptor FepA; Provisional; Region: PRK13528 882884000467 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 882884000468 N-terminal plug; other site 882884000469 ligand-binding site [chemical binding]; other site 882884000470 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 882884000471 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 882884000472 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 882884000473 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 882884000474 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 882884000475 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884000476 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 882884000477 Walker A/P-loop; other site 882884000478 ATP binding site [chemical binding]; other site 882884000479 Q-loop/lid; other site 882884000480 ABC transporter signature motif; other site 882884000481 Walker B; other site 882884000482 D-loop; other site 882884000483 H-loop/switch region; other site 882884000484 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 882884000485 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 882884000486 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884000487 Walker A/P-loop; other site 882884000488 ATP binding site [chemical binding]; other site 882884000489 Q-loop/lid; other site 882884000490 ABC transporter signature motif; other site 882884000491 Walker B; other site 882884000492 D-loop; other site 882884000493 H-loop/switch region; other site 882884000494 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 882884000495 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 882884000496 homodimer interface [polypeptide binding]; other site 882884000497 active site 882884000498 TDP-binding site; other site 882884000499 acceptor substrate-binding pocket; other site 882884000500 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 882884000501 catalytic residues [active] 882884000502 catalytic nucleophile [active] 882884000503 Protein of unknown function (DUF3289); Region: DUF3289; cl11840 882884000504 Enterobacterial putative membrane protein (DUF943); Region: DUF943; pfam06092 882884000505 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 882884000506 E3 ubiquitin-protein ligase SspH2; Provisional; Region: PRK15387 882884000507 pathogenicity island 2 effector protein SseI; Provisional; Region: PRK15372 882884000508 Type III secretion system leucine rich repeat protein; Region: TTSSLRR; pfam12468 882884000509 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 882884000510 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 include the bacteriophage lambda integrase, the...; Region: INT_REC_C; cd01182 882884000511 Int/Topo IB signature motif; other site 882884000512 active site 882884000513 catalytic residues [active] 882884000514 DNA binding site [nucleotide binding] 882884000515 Phage integrase family; Region: Phage_integrase; pfam00589 882884000516 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 include the bacteriophage lambda integrase, the...; Region: INT_REC_C; cd01182 882884000517 DNA binding site [nucleotide binding] 882884000518 Int/Topo IB signature motif; other site 882884000519 active site 882884000520 catalytic residues [active] 882884000521 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 882884000522 lipoprotein NlpI; Provisional; Region: PRK11189 882884000523 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 882884000524 Superfamily II helicase [General function prediction only]; Region: COG1204 882884000525 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; cl14882 882884000526 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 882884000527 active site 882884000528 nucleophile elbow; other site 882884000529 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 882884000530 integrase; Provisional; Region: PRK09692 882884000531 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 882884000532 active site 882884000533 Int/Topo IB signature motif; other site 882884000534 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 882884000535 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 882884000536 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 882884000537 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884000538 Walker A/P-loop; other site 882884000539 ATP binding site [chemical binding]; other site 882884000540 Q-loop/lid; other site 882884000541 ABC transporter signature motif; other site 882884000542 Walker B; other site 882884000543 D-loop; other site 882884000544 H-loop/switch region; other site 882884000545 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 882884000546 Outer membrane efflux protein; Region: OEP; pfam02321 882884000547 Outer membrane efflux protein; Region: OEP; pfam02321 882884000548 Protein of unknown function (DUF3607); Region: DUF3607; pfam12245 882884000549 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; cl12108 882884000550 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 882884000551 SmpB-tmRNA interface; other site 882884000552 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 882884000553 putative coenzyme Q binding site [chemical binding]; other site 882884000554 Uncharacterised protein family (UPF0125); Region: UPF0125; cl01096 882884000555 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 882884000556 recombination and repair protein; Provisional; Region: PRK10869 882884000557 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 882884000558 Walker A/P-loop; other site 882884000559 ATP binding site [chemical binding]; other site 882884000560 Q-loop/lid; other site 882884000561 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 882884000562 ABC transporter signature motif; other site 882884000563 Walker B; other site 882884000564 D-loop; other site 882884000565 H-loop/switch region; other site 882884000566 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 882884000567 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 882884000568 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 882884000569 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 882884000570 dimer interface [polypeptide binding]; other site 882884000571 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 882884000572 hypothetical protein; Provisional; Region: PRK11573 882884000573 Domain of unknown function DUF21; Region: DUF21; pfam01595 882884000574 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 882884000575 Transporter associated domain; Region: CorC_HlyC; pfam03471 882884000576 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 882884000577 signal recognition particle protein; Provisional; Region: PRK10867 882884000578 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 882884000579 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 882884000580 P loop; other site 882884000581 GTP binding site [chemical binding]; other site 882884000582 Signal peptide binding domain; Region: SRP_SPB; pfam02978 882884000583 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 882884000584 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 882884000585 RimM N-terminal domain; Region: RimM; pfam01782 882884000586 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to...; Region: PRCH; cl09959 882884000587 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 882884000588 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 882884000589 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 882884000590 NeuB family; Region: NeuB; cl00496 882884000591 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 882884000592 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 882884000593 Chorismate mutase type II; Region: CM_2; cl00693 882884000594 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884000595 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 882884000596 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 882884000597 Chorismate mutase type II; Region: CM_2; cl00693 882884000598 Prephenate dehydratase; Region: PDT; pfam00800 882884000599 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 882884000600 putative L-Phe binding site [chemical binding]; other site 882884000601 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site...; Region: RaiA; cd00552 882884000602 30S subunit binding site; other site 882884000603 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 882884000604 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 882884000605 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 882884000606 RNA binding surface [nucleotide binding]; other site 882884000607 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 882884000608 active site 882884000609 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 882884000610 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 882884000611 protein disaggregation chaperone; Provisional; Region: PRK10865 882884000612 Clp amino terminal domain; Region: Clp_N; pfam02861 882884000613 Clp amino terminal domain; Region: Clp_N; pfam02861 882884000614 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...; Region: AAA; cd00009 882884000615 Walker A motif; other site 882884000616 ATP binding site [chemical binding]; other site 882884000617 Walker B motif; other site 882884000618 arginine finger; other site 882884000619 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...; Region: AAA; cd00009 882884000620 Walker A motif; other site 882884000621 ATP binding site [chemical binding]; other site 882884000622 Walker B motif; other site 882884000623 arginine finger; other site 882884000624 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 882884000625 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 882884000626 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 882884000627 putative substrate translocation pore; other site 882884000628 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; cl11574 882884000629 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 882884000630 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 882884000631 domain interface [polypeptide binding]; other site 882884000632 putative active site [active] 882884000633 catalytic site [active] 882884000634 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 882884000635 domain interface [polypeptide binding]; other site 882884000636 putative active site [active] 882884000637 catalytic site [active] 882884000638 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 882884000639 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884000640 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 882884000641 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 882884000642 DTW domain; Region: DTW; cl01221 882884000643 thioredoxin 2; Provisional; Region: PRK10996 882884000644 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 882884000645 catalytic residues [active] 882884000646 putative methyltransferase; Provisional; Region: PRK10864 882884000647 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 882884000648 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 882884000649 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 882884000650 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 882884000651 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 882884000652 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 882884000653 ATP binding site [chemical binding]; other site 882884000654 Mg++ binding site [ion binding]; other site 882884000655 motif III; other site 882884000656 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 882884000657 nucleotide binding region [chemical binding]; other site 882884000658 ATP-binding site [chemical binding]; other site 882884000659 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 882884000660 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 882884000661 S-adenosylmethionine binding site [chemical binding]; other site 882884000662 L-aspartate oxidase; Provisional; Region: PRK09077 882884000663 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 882884000664 domain; Region: Succ_DH_flav_C; pfam02910 882884000665 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 882884000666 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 882884000667 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...; Region: Sigma70_r4; cd06171 882884000668 DNA binding residues [nucleotide binding] 882884000669 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 882884000670 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 882884000671 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 882884000672 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 882884000673 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 882884000674 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; cl05448 882884000675 E3 ubiquitin-protein ligase SspH2; Provisional; Region: PRK15387 882884000676 pathogenicity island 2 effector protein SseI; Provisional; Region: PRK15372 882884000677 Type III secretion system leucine rich repeat protein; Region: TTSSLRR; pfam12468 882884000678 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 882884000679 GTP-binding protein LepA; Provisional; Region: PRK05433 882884000680 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 882884000681 G1 box; other site 882884000682 putative GEF interaction site [polypeptide binding]; other site 882884000683 GTP/Mg2+ binding site [chemical binding]; other site 882884000684 Switch I region; other site 882884000685 G2 box; other site 882884000686 G3 box; other site 882884000687 Switch II region; other site 882884000688 G4 box; other site 882884000689 G5 box; other site 882884000690 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-...; Region: lepA_II; cd03699 882884000691 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 882884000692 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 882884000693 signal peptidase I; Provisional; Region: PRK10861 882884000694 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 882884000695 Catalytic site [active] 882884000696 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 882884000697 rncO; Rfam score 223.8; SARI_00297 882884000698 GTPase Era; Reviewed; Region: era; PRK00089 882884000699 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit...; Region: Era; cd04163 882884000700 G1 box; other site 882884000701 GTP/Mg2+ binding site [chemical binding]; other site 882884000702 Switch I region; other site 882884000703 G2 box; other site 882884000704 Switch II region; other site 882884000705 G3 box; other site 882884000706 G4 box; other site 882884000707 G5 box; other site 882884000708 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains...; Region: KH-I; cl00098 882884000709 Recombination protein O N terminal; Region: RecO_N; pfam11967 882884000710 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 882884000711 Recombination protein O C terminal; Region: RecO_C; pfam02565 882884000712 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 882884000713 active site 882884000714 hydrophilic channel; other site 882884000715 dimerization interface [polypeptide binding]; other site 882884000716 catalytic residues [active] 882884000717 active site lid [active] 882884000718 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 882884000719 ferredoxin; Validated; Region: PRK07118 882884000720 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 882884000721 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose...; Region: SIS_RpiR; cd05013 882884000722 putative active site [active] 882884000723 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 882884000724 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 882884000725 putative active site [active] 882884000726 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; cl11391 882884000727 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 882884000728 nucleoside/Zn binding site; other site 882884000729 dimer interface [polypeptide binding]; other site 882884000730 catalytic motif [active] 882884000731 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 882884000732 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...; Region: PBPb; cd00134 882884000733 substrate binding pocket [chemical binding]; other site 882884000734 membrane-bound complex binding site; other site 882884000735 hinge residues; other site 882884000736 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 882884000737 N-acetyl-D-glucosamine binding site [chemical binding]; other site 882884000738 catalytic residue [active] 882884000739 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 882884000740 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 882884000741 dimerization interface [polypeptide binding]; other site 882884000742 ATP binding site [chemical binding]; other site 882884000743 Formylglycinamide ribonucleotide amidotransferase (FGAR-AT) catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP, phosphate, and glutamate in the fourth step...; Region: PurL; cd02193 882884000744 dimerization interface [polypeptide binding]; other site 882884000745 ATP binding site [chemical binding]; other site 882884000746 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 882884000747 putative active site [active] 882884000748 catalytic triad [active] 882884000749 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 882884000750 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 connected by an extended linker. The...; Region: HAMP; cl01054 882884000751 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 trans-...; Region: HisKA; cd00082 882884000752 dimer interface [polypeptide binding]; other site 882884000753 phosphorylation site [posttranslational modification] 882884000754 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884000755 ATP binding site [chemical binding]; other site 882884000756 Mg2+ binding site [ion binding]; other site 882884000757 G-X-G motif; other site 882884000758 hypothetical protein; Provisional; Region: PRK10722 882884000759 response regulator GlrR; Provisional; Region: PRK15115 882884000760 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884000761 active site 882884000762 phosphorylation site [posttranslational modification] 882884000763 intermolecular recognition site; other site 882884000764 dimerization interface [polypeptide binding]; other site 882884000765 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...; Region: AAA; cd00009 882884000766 Walker A motif; other site 882884000767 ATP binding site [chemical binding]; other site 882884000768 Walker B motif; other site 882884000769 arginine finger; other site 882884000770 Nitrogen regulatory protein P-II; Region: P-II; cl00412 882884000771 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 882884000772 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 882884000773 putative substrate translocation pore; other site 882884000774 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 882884000775 lysine decarboxylase CadA; Provisional; Region: PRK15400 882884000776 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 882884000777 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and...; Region: Orn_deC_like; cd00615 882884000778 homodimer interface [polypeptide binding]; other site 882884000779 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884000780 catalytic residue [active] 882884000781 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 882884000782 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 882884000783 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 882884000784 DNA-binding transcriptional activator CadC; Provisional; Region: PRK10153 882884000785 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...; Region: trans_reg_C; cd00383 882884000786 DNA binding site [nucleotide binding] 882884000787 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 882884000788 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 882884000789 heme-binding site [chemical binding]; other site 882884000790 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 882884000791 FAD binding pocket [chemical binding]; other site 882884000792 FAD binding motif [chemical binding]; other site 882884000793 phosphate binding motif [ion binding]; other site 882884000794 beta-alpha-beta structure motif; other site 882884000795 NAD binding pocket [chemical binding]; other site 882884000796 Heme binding pocket [chemical binding]; other site 882884000797 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...; Region: SHMT; cd00378 882884000798 dimer interface [polypeptide binding]; other site 882884000799 glycine-pyridoxal phosphate binding site [chemical binding]; other site 882884000800 active site 882884000801 folate binding site [chemical binding]; other site 882884000802 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 882884000803 MFS_1 like family; Region: MFS_1_like; pfam12832 882884000804 stationary phase inducible protein CsiE; Provisional; Region: PRK11564 882884000805 PRD domain; Region: PRD; pfam00874 882884000806 PRD domain; Region: PRD; pfam00874 882884000807 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 882884000808 High-affinity nickel-transport protein; Region: NicO; cl00964 882884000809 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 882884000810 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 882884000811 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 alpha-; Region: HCP_like; cl14655 882884000812 sulfite reductase, subunit B; Region: sulfite_red_B; TIGR02911 882884000813 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 882884000814 FAD binding pocket [chemical binding]; other site 882884000815 FAD binding motif [chemical binding]; other site 882884000816 phosphate binding motif [ion binding]; other site 882884000817 beta-alpha-beta structure motif; other site 882884000818 NAD binding pocket [chemical binding]; other site 882884000819 Iron coordination center [ion binding]; other site 882884000820 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 882884000821 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 alpha-; Region: HCP_like; cl14655 882884000822 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 882884000823 active site 882884000824 dimerization interface [polypeptide binding]; other site 882884000825 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 882884000826 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 882884000827 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884000828 Rrf2 family protein; Region: rrf2_super; TIGR00738 882884000829 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 882884000830 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 882884000831 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 882884000832 catalytic residue [active] 882884000833 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 882884000834 trimerization site [polypeptide binding]; other site 882884000835 active site 882884000836 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 882884000837 co-chaperone HscB; Provisional; Region: hscB; PRK05014 882884000838 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...; Region: DnaJ; cl02542 882884000839 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 882884000840 chaperone protein HscA; Provisional; Region: hscA; PRK05183 882884000841 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 882884000842 catalytic loop [active] 882884000843 iron binding site [ion binding]; other site 882884000844 Protein of unknown function (DUF528); Region: DUF528; cl01123 882884000845 aminopeptidase B; Provisional; Region: PRK05015 882884000846 Peptidase; Region: DUF3663; pfam12404 882884000847 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein...; Region: Peptidase_M17; cd00433 882884000848 interface (dimer of trimers) [polypeptide binding]; other site 882884000849 Substrate-binding/catalytic site; other site 882884000850 Zn-binding sites [ion binding]; other site 882884000851 SseB protein; Region: SseB; cl06279 882884000852 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 882884000853 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but...; Region: TST_Repeat_1; cd01448 882884000854 active site residue [active] 882884000855 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 882884000856 active site residue [active] 882884000857 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 882884000858 MG2 domain; Region: A2M_N; pfam01835 882884000859 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 882884000860 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 882884000861 surface patch; other site 882884000862 thioester region; other site 882884000863 specificity defining residues; other site 882884000864 penicillin-binding protein 1C; Provisional; Region: PRK11240 882884000865 Transglycosylase; Region: Transgly; cl07896 882884000866 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 882884000867 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 882884000868 DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 882884000869 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted N-...; Region: MopB_DmsA-EC; cd02770 882884000870 putative [Fe4-S4] binding site [ion binding]; other site 882884000871 putative molybdopterin cofactor binding site [chemical binding]; other site 882884000872 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted N-...; Region: MopB_CT_DmsA-EC; cd02794 882884000873 putative molybdopterin cofactor binding site; other site 882884000874 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 882884000875 4Fe-4S binding domain; Region: Fer4; cl02805 882884000876 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl04869 882884000877 archaeoflavoprotein, MJ0208 family; Region: flavo_MJ0208; TIGR02700 882884000878 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 882884000879 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 882884000880 active site 882884000881 multimer interface [polypeptide binding]; other site 882884000882 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 882884000883 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 882884000884 FeS/SAM binding site; other site 882884000885 cytoskeletal protein RodZ; Provisional; Region: PRK10856 882884000886 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 882884000887 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 882884000888 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 882884000889 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 882884000890 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 882884000891 dimer interface [polypeptide binding]; other site 882884000892 motif 1; other site 882884000893 active site 882884000894 motif 2; other site 882884000895 motif 3; other site 882884000896 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 882884000897 anticodon binding site; other site 882884000898 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 882884000899 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 882884000900 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 882884000901 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cl11493 882884000902 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cl11493 882884000903 active site 882884000904 GTP-binding protein Der; Reviewed; Region: PRK00093 882884000905 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA1; cd01894 882884000906 G1 box; other site 882884000907 GTP/Mg2+ binding site [chemical binding]; other site 882884000908 Switch I region; other site 882884000909 G2 box; other site 882884000910 Switch II region; other site 882884000911 G3 box; other site 882884000912 G4 box; other site 882884000913 G5 box; other site 882884000914 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA2; cd01895 882884000915 G1 box; other site 882884000916 GTP/Mg2+ binding site [chemical binding]; other site 882884000917 Switch I region; other site 882884000918 G2 box; other site 882884000919 G3 box; other site 882884000920 Switch II region; other site 882884000921 G4 box; other site 882884000922 G5 box; other site 882884000923 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 882884000924 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 882884000925 active site 882884000926 Zn binding site [ion binding]; other site 882884000927 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 882884000928 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 single-strand-...; Region: ExoVII_LU_OBF; cd04489 882884000929 generic binding surface II; other site 882884000930 generic binding surface I; other site 882884000931 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 882884000932 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 882884000933 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 882884000934 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the...; Region: IMPDH; cd00381 882884000935 active site 882884000936 GMP synthase; Reviewed; Region: guaA; PRK00074 882884000937 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 882884000938 AMP/PPi binding site [chemical binding]; other site 882884000939 candidate oxyanion hole; other site 882884000940 catalytic triad [active] 882884000941 potential glutamine specificity residues [chemical binding]; other site 882884000942 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 882884000943 ATP Binding subdomain [chemical binding]; other site 882884000944 Ligand Binding sites [chemical binding]; other site 882884000945 Dimerization subdomain; other site 882884000946 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 882884000947 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 882884000948 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 882884000949 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 882884000950 Phd_YefM; Region: PhdYeFM; cl09153 882884000951 Sel1 repeat; Region: Sel1; cl02723 882884000952 Protein of unknown function (DUF2633); Region: DUF2633; pfam11119 882884000953 MASE1; Region: MASE1; pfam05231 882884000954 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 882884000955 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 882884000956 exopolyphosphatase; Provisional; Region: PRK10854 882884000957 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 882884000958 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 882884000959 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 882884000960 putative active site [active] 882884000961 catalytic site [active] 882884000962 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 882884000963 domain interface [polypeptide binding]; other site 882884000964 active site 882884000965 catalytic site [active] 882884000966 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 882884000967 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 882884000968 active site 882884000969 substrate binding site [chemical binding]; other site 882884000970 cosubstrate binding site; other site 882884000971 catalytic site [active] 882884000972 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 882884000973 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...; Region: PurM; cd02196 882884000974 dimerization interface [polypeptide binding]; other site 882884000975 putative ATP binding site [chemical binding]; other site 882884000976 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 882884000977 Sulfate transporter family; Region: Sulfate_transp; cl00967 882884000978 Permease family; Region: Xan_ur_permease; pfam00860 882884000979 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884000980 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 882884000981 catalytic residues [active] 882884000982 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 882884000983 Peptidase family M48; Region: Peptidase_M48; cl12018 882884000984 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 882884000985 Domain of unknown function DUF20; Region: UPF0118; cl00465 882884000986 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 882884000987 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 882884000988 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 882884000989 Glycerate kinase family; Region: Gly_kinase; cl00841 882884000990 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...; Region: PRX_BCP; cd03017 882884000991 catalytic triad [active] 882884000992 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 882884000993 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 882884000994 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 882884000995 dihydrodipicolinate synthase; Region: dapA; TIGR00674 882884000996 dimer interface [polypeptide binding]; other site 882884000997 active site 882884000998 catalytic residue [active] 882884000999 lipoprotein; Provisional; Region: PRK11679 882884001000 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 882884001001 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 882884001002 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 882884001003 ATP binding site [chemical binding]; other site 882884001004 active site 882884001005 substrate binding site [chemical binding]; other site 882884001006 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 882884001007 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 882884001008 Putative ATPase (DUF699); Region: DUF699; pfam05127 882884001009 hypothetical protein; Provisional; Region: PRK13664 882884001010 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 882884001011 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 882884001012 metal binding site [ion binding]; metal-binding site 882884001013 dimer interface [polypeptide binding]; other site 882884001014 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 882884001015 putative catalytic residues [active] 882884001016 aminoglycoside/multidrug efflux system; Provisional; Region: PRK10555 882884001017 Protein export membrane protein; Region: SecD_SecF; cl14618 882884001018 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 882884001019 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 connected by an extended linker. The...; Region: HAMP; cl01054 882884001020 Histidine kinase; Region: HisKA_3; pfam07730 882884001021 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884001022 ATP binding site [chemical binding]; other site 882884001023 Mg2+ binding site [ion binding]; other site 882884001024 G-X-G motif; other site 882884001025 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 882884001026 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 882884001027 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 882884001028 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 882884001029 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as...; Region: ADPRase_NUDT5; cd03424 882884001030 dimer interface [polypeptide binding]; other site 882884001031 ADP-ribose binding site [chemical binding]; other site 882884001032 active site 882884001033 nudix motif; other site 882884001034 metal binding site [ion binding]; metal-binding site 882884001035 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 882884001036 transketolase; Reviewed; Region: PRK12753 882884001037 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 882884001038 TPP-binding site [chemical binding]; other site 882884001039 dimer interface [polypeptide binding]; other site 882884001040 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 882884001041 PYR/PP interface [polypeptide binding]; other site 882884001042 dimer interface [polypeptide binding]; other site 882884001043 TPP binding site [chemical binding]; other site 882884001044 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 882884001045 transaldolase-like protein; Provisional; Region: PTZ00411 882884001046 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 882884001047 active site 882884001048 dimer interface [polypeptide binding]; other site 882884001049 catalytic residue [active] 882884001050 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 882884001051 Malic enzyme, N-terminal domain; Region: malic; pfam00390 882884001052 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 882884001053 putative NAD(P) binding site [chemical binding]; other site 882884001054 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 882884001055 Sulfatase; Region: Sulfatase; cl10460 882884001056 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 882884001057 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 882884001058 FeS/SAM binding site; other site 882884001059 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 882884001060 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 882884001061 putative hexamer interface [polypeptide binding]; other site 882884001062 putative hexagonal pore; other site 882884001063 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs)...; Region: Era_like; cd00880 882884001064 G1 box; other site 882884001065 GTP/Mg2+ binding site [chemical binding]; other site 882884001066 Switch I region; other site 882884001067 Switch II region; other site 882884001068 G3 box; other site 882884001069 G4 box; other site 882884001070 Cupin domain; Region: Cupin_2; cl09118 882884001071 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutQ; COG4766 882884001072 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 882884001073 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 882884001074 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 882884001075 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 882884001076 Hexamer interface [polypeptide binding]; other site 882884001077 Hexagonal pore residue; other site 882884001078 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 882884001079 Hexamer/Pentamer interface [polypeptide binding]; other site 882884001080 central pore; other site 882884001081 aldehyde dehydrogenase EutE; Provisional; Region: PRK15398 882884001082 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 882884001083 putative catalytic cysteine [active] 882884001084 Ethanolamine utilization protein, possible chaperonin [Amino acid transport and metabolism]; Region: EutJ; COG4820 882884001085 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 882884001086 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 882884001087 active site 882884001088 metal binding site [ion binding]; metal-binding site 882884001089 Ethanolamine utilisation protein, EutH; Region: EutH; cl01248 882884001090 reactivating factor for ethanolamine ammonia lyase; Provisional; Region: eutA; PRK10719 882884001091 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 882884001092 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; cl09205 882884001093 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 882884001094 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 882884001095 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_EutL_repeat1; cd07049 882884001096 putative hexamer interface [polypeptide binding]; other site 882884001097 putative hexagonal pore; other site 882884001098 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_EutL_repeat2; cd07050 882884001099 putative hexamer interface [polypeptide binding]; other site 882884001100 putative hexagonal pore; other site 882884001101 carboxysome structural protein EutK; Provisional; Region: PRK15466 882884001102 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 882884001103 Hexamer interface [polypeptide binding]; other site 882884001104 Hexagonal pore residue; other site 882884001105 transcriptional regulator EutR; Provisional; Region: PRK10130 882884001106 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882884001107 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 882884001108 N-acetylmuramoyl-l-alanine amidase I; Provisional; Region: PRK10319 882884001109 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 882884001110 active site 882884001111 metal binding site [ion binding]; metal-binding site 882884001112 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 882884001113 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882884001114 Coenzyme A binding pocket [chemical binding]; other site 882884001115 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 882884001116 Protein of unknown function (DUF1131); Region: DUF1131; cl05867 882884001117 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 882884001118 Beta-lactamase; Region: Beta-lactamase; cl01009 882884001119 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 882884001120 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 882884001121 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIB_glc; cd00212 882884001122 active site turn [active] 882884001123 phosphorylation site [posttranslational modification] 882884001124 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 882884001125 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 882884001126 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 882884001127 putative active site [active] 882884001128 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 882884001129 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface...; Region: gram_neg_porins; cd00342 882884001130 trimer interface [polypeptide binding]; other site 882884001131 eyelet of channel; other site 882884001132 transcriptional regulator MurR; Provisional; Region: PRK15482 882884001133 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose...; Region: SIS_RpiR; cd05013 882884001134 putative active site [active] 882884001135 short chain dehydrogenase; Provisional; Region: PRK08226 882884001136 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 882884001137 NAD binding site [chemical binding]; other site 882884001138 homotetramer interface [polypeptide binding]; other site 882884001139 homodimer interface [polypeptide binding]; other site 882884001140 active site 882884001141 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884001142 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 882884001143 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...; Region: TM_PBP2; cd06261 882884001144 dimer interface [polypeptide binding]; other site 882884001145 conserved gate region; other site 882884001146 putative PBP binding loops; other site 882884001147 ABC-ATPase subunit interface; other site 882884001148 sulfate transport protein; Provisional; Region: cysT; CHL00187 882884001149 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...; Region: TM_PBP2; cd06261 882884001150 dimer interface [polypeptide binding]; other site 882884001151 conserved gate region; other site 882884001152 putative PBP binding loops; other site 882884001153 ABC-ATPase subunit interface; other site 882884001154 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 882884001155 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-...; Region: ABC_CysA_sulfate_importer; cd03296 882884001156 Walker A/P-loop; other site 882884001157 ATP binding site [chemical binding]; other site 882884001158 Q-loop/lid; other site 882884001159 ABC transporter signature motif; other site 882884001160 Walker B; other site 882884001161 D-loop; other site 882884001162 H-loop/switch region; other site 882884001163 TOBE-like domain; Region: TOBE_3; pfam12857 882884001164 cysteine synthases; Region: cysKM; TIGR01136 882884001165 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 882884001166 dimer interface [polypeptide binding]; other site 882884001167 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884001168 catalytic residue [active] 882884001169 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 882884001170 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 882884001171 catalytic triad [active] 882884001172 transcriptional regulatory protein PtsJ; Provisional; Region: PRK15481 882884001173 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882884001174 DNA-binding site [nucleotide binding]; DNA binding site 882884001175 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 882884001176 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884001177 homodimer interface [polypeptide binding]; other site 882884001178 catalytic residue [active] 882884001179 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 882884001180 dimer interface [polypeptide binding]; other site 882884001181 pyridoxal binding site [chemical binding]; other site 882884001182 ATP binding site [chemical binding]; other site 882884001183 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_glc; cd00210 882884001184 HPr interaction site; other site 882884001185 glycerol kinase (GK) interaction site [polypeptide binding]; other site 882884001186 active site 882884001187 phosphorylation site [posttranslational modification] 882884001188 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 882884001189 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 882884001190 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 882884001191 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 882884001192 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 882884001193 dimerization domain swap beta strand [polypeptide binding]; other site 882884001194 regulatory protein interface [polypeptide binding]; other site 882884001195 active site 882884001196 regulatory phosphorylation site [posttranslational modification]; other site 882884001197 cysteine synthases; Region: cysKM; TIGR01136 882884001198 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 882884001199 dimer interface [polypeptide binding]; other site 882884001200 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884001201 catalytic residue [active] 882884001202 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 882884001203 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 882884001204 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cd00231 882884001205 FtsZ protein binding site [polypeptide binding]; other site 882884001206 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 882884001207 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 882884001208 nucleotide binding pocket [chemical binding]; other site 882884001209 K-X-D-G motif; other site 882884001210 catalytic site [active] 882884001211 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 882884001212 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 882884001213 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 882884001214 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 882884001215 Dimer interface [polypeptide binding]; other site 882884001216 BRCT sequence motif; other site 882884001217 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 882884001218 Membrane transport protein; Region: Mem_trans; cl09117 882884001219 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 882884001220 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 882884001221 active site 882884001222 HIGH motif; other site 882884001223 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 882884001224 active site 882884001225 KMSKS motif; other site 882884001226 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 882884001227 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 882884001228 MASE1; Region: MASE1; pfam05231 882884001229 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 882884001230 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 882884001231 nucleoside transporter; Region: nupC; TIGR00804 882884001232 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 882884001233 Nucleoside recognition; Region: Gate; cl00486 882884001234 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 882884001235 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 882884001236 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 882884001237 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 882884001238 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...; Region: Aldo_ket_red; cd06660 882884001239 active site 882884001240 catalytic tetrad [active] 882884001241 indolepyruvate decarboxylase, Erwinia family; Region: indolpyr_decarb; TIGR03393 882884001242 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 882884001243 dimer interface [polypeptide binding]; other site 882884001244 PYR/PP interface [polypeptide binding]; other site 882884001245 TPP binding site [chemical binding]; other site 882884001246 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 882884001247 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 pyruvate to acetaldehyde and CO2. It is able to utilize...; Region: TPP_PDC_IPDC; cd02005 882884001248 TPP-binding site [chemical binding]; other site 882884001249 dimer interface [polypeptide binding]; other site 882884001250 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 882884001251 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 882884001252 Cl- selectivity filter; other site 882884001253 Cl- binding residues [ion binding]; other site 882884001254 pore gating glutamate residue; other site 882884001255 dimer interface [polypeptide binding]; other site 882884001256 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 882884001257 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA...; Region: PTS_IIB_fructose; cd05569 882884001258 P-loop; other site 882884001259 active site 882884001260 phosphorylation site [posttranslational modification] 882884001261 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 882884001262 aminopeptidase; Provisional; Region: PRK09795 882884001263 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 882884001264 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 882884001265 active site 882884001266 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 882884001267 M42 Peptidases, also known as glutamyl aminopeptidase family; Region: M42; cd05638 882884001268 oligomer interface [polypeptide binding]; other site 882884001269 active site 882884001270 metal binding site [ion binding]; metal-binding site 882884001271 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 882884001272 dimerization domain swap beta strand [polypeptide binding]; other site 882884001273 regulatory protein interface [polypeptide binding]; other site 882884001274 active site 882884001275 regulatory phosphorylation site [posttranslational modification]; other site 882884001276 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 882884001277 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 882884001278 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 882884001279 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 882884001280 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 882884001281 active site 882884001282 phosphorylation site [posttranslational modification] 882884001283 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 882884001284 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882884001285 aspartate aminotransferase; Provisional; Region: PRK07681 882884001286 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 882884001287 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884001288 homodimer interface [polypeptide binding]; other site 882884001289 catalytic residue [active] 882884001290 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 882884001291 putative acyl-acceptor binding pocket; other site 882884001292 Protein of unknown function (DUF2545); Region: DUF2545; pfam10810 882884001293 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 882884001294 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 882884001295 putative substrate translocation pore; other site 882884001296 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 882884001297 Omptin family; Region: Omptin; cl01886 882884001298 putative transposase OrfB; Reviewed; Region: PHA02517 882884001299 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884001300 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 882884001301 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 882884001302 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 882884001303 active site 882884001304 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 882884001305 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 882884001306 VacJ like lipoprotein; Region: VacJ; cl01073 882884001307 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 882884001308 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 882884001309 Protein of unknown function (DUF406); Region: DUF406; cl11449 882884001310 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 882884001311 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 882884001312 dimer interface [polypeptide binding]; other site 882884001313 active site 882884001314 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 882884001315 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 882884001316 substrate binding site [chemical binding]; other site 882884001317 oxyanion hole (OAH) forming residues; other site 882884001318 trimer interface [polypeptide binding]; other site 882884001319 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884001320 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 882884001321 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 882884001322 catalytic core [active] 882884001323 Smr domain; Region: Smr; cl02619 882884001324 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 882884001325 HemK family putative methylases; Region: hemK_fam; TIGR00536 882884001326 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 882884001327 S-adenosylmethionine binding site [chemical binding]; other site 882884001328 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 882884001329 Tetramer interface [polypeptide binding]; other site 882884001330 Active site [active] 882884001331 FMN-binding site [chemical binding]; other site 882884001332 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 882884001333 Penicillin-insensitive murein endopeptidase; Region: Peptidase_M74; cl01538 882884001334 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 882884001335 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 882884001336 Protein of unknown function, DUF462; Region: DUF462; cl01190 882884001337 YfcL protein; Region: YfcL; pfam08891 882884001338 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 882884001339 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 882884001340 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 882884001341 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 882884001342 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 882884001343 dimer interface [polypeptide binding]; other site 882884001344 active site 882884001345 Protein of unknown function (DUF3828); Region: DUF3828; pfam12883 882884001346 Predicted transcriptional regulator [Transcription]; Region: Nlp; cl01357 882884001347 putative transporter; Provisional; Region: PRK12382 882884001348 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 882884001349 putative substrate translocation pore; other site 882884001350 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 882884001351 erythronate-4-phosphate dehydrogenase PdxB; Provisional; Region: PRK15438 882884001352 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884001353 Domain of unknown function (DUF3410); Region: DUF3410; pfam11890 882884001354 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 882884001355 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884001356 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 882884001357 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 882884001358 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1)...; Region: PseudoU_synth_EcTruA; cd02570 882884001359 dimerization interface 3.5A [polypeptide binding]; other site 882884001360 active site 882884001361 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 882884001362 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 882884001363 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 882884001364 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 882884001365 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 882884001366 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 882884001367 cell division protein DedD; Provisional; Region: PRK11633 882884001368 Sporulation related domain; Region: SPOR; cl10051 882884001369 Colicin V production protein; Region: Colicin_V; cl00567 882884001370 amidophosphoribosyltransferase; Provisional; Region: PRK09246 882884001371 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 882884001372 active site 882884001373 tetramer interface [polypeptide binding]; other site 882884001374 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 882884001375 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 882884001376 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...; Region: AAA; cd00009 882884001377 Walker A motif; other site 882884001378 ATP binding site [chemical binding]; other site 882884001379 Walker B motif; other site 882884001380 arginine finger; other site 882884001381 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 882884001382 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 882884001383 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 882884001384 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 882884001385 catalytic residue [active] 882884001386 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 882884001387 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 882884001388 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 882884001389 dimer interface [polypeptide binding]; other site 882884001390 active site 882884001391 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 882884001392 substrate binding site [chemical binding]; other site 882884001393 catalytic residue [active] 882884001394 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 882884001395 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 882884001396 Flavoprotein; Region: Flavoprotein; cl08021 882884001397 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 882884001398 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...; Region: PBPb; cd00134 882884001399 substrate binding pocket [chemical binding]; other site 882884001400 membrane-bound complex binding site; other site 882884001401 hinge residues; other site 882884001402 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 882884001403 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...; Region: PBPb; cd00134 882884001404 substrate binding pocket [chemical binding]; other site 882884001405 membrane-bound complex binding site; other site 882884001406 hinge residues; other site 882884001407 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 882884001408 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...; Region: TM_PBP2; cd06261 882884001409 dimer interface [polypeptide binding]; other site 882884001410 conserved gate region; other site 882884001411 putative PBP binding loops; other site 882884001412 ABC-ATPase subunit interface; other site 882884001413 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 882884001414 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...; Region: TM_PBP2; cd06261 882884001415 dimer interface [polypeptide binding]; other site 882884001416 conserved gate region; other site 882884001417 putative PBP binding loops; other site 882884001418 ABC-ATPase subunit interface; other site 882884001419 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 882884001420 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 882884001421 Walker A/P-loop; other site 882884001422 ATP binding site [chemical binding]; other site 882884001423 Q-loop/lid; other site 882884001424 ABC transporter signature motif; other site 882884001425 Walker B; other site 882884001426 D-loop; other site 882884001427 H-loop/switch region; other site 882884001428 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 882884001429 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 882884001430 putative NAD(P) binding site [chemical binding]; other site 882884001431 putative active site [active] 882884001432 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 882884001433 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen...; Region: GST_N_Ure2p_like; cd03048 882884001434 C-terminal domain interface [polypeptide binding]; other site 882884001435 GSH binding site (G-site) [chemical binding]; other site 882884001436 dimer interface [polypeptide binding]; other site 882884001437 GST_C family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen...; Region: GST_C_Ure2p_like; cd03178 882884001438 dimer interface [polypeptide binding]; other site 882884001439 N-terminal domain interface [polypeptide binding]; other site 882884001440 putative substrate binding pocket (H-site) [chemical binding]; other site 882884001441 glutathione S-transferase; Provisional; Region: PRK15113 882884001442 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 882884001443 GST_C family, unknown subfamily 4; composed of uncharacterized proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous...; Region: GST_C_4; cd03195 882884001444 putative N-terminal domain interface [polypeptide binding]; other site 882884001445 putative dimer interface [polypeptide binding]; other site 882884001446 putative substrate binding pocket (H-site) [chemical binding]; other site 882884001447 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 882884001448 active site 882884001449 metal binding site [ion binding]; metal-binding site 882884001450 homotetramer interface [polypeptide binding]; other site 882884001451 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 882884001452 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_38; cd04697 882884001453 nudix motif; other site 882884001454 Transcriptional regulators [Transcription]; Region: PurR; COG1609 882884001455 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 882884001456 DNA binding site [nucleotide binding] 882884001457 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 882884001458 putative dimerization interface [polypeptide binding]; other site 882884001459 putative ligand binding site [chemical binding]; other site 882884001460 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 882884001461 active site 882884001462 phosphorylation site [posttranslational modification] 882884001463 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 882884001464 P-loop; other site 882884001465 active site 882884001466 phosphorylation site [posttranslational modification] 882884001467 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 882884001468 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 882884001469 TPP-binding site [chemical binding]; other site 882884001470 dimer interface [polypeptide binding]; other site 882884001471 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 882884001472 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 882884001473 PYR/PP interface [polypeptide binding]; other site 882884001474 dimer interface [polypeptide binding]; other site 882884001475 TPP binding site [chemical binding]; other site 882884001476 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 882884001477 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 882884001478 Predicted membrane protein [Function unknown]; Region: COG1288 882884001479 phosphate acetyltransferase; Reviewed; Region: PRK05632 882884001480 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 882884001481 DRTGG domain; Region: DRTGG; cl12147 882884001482 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 882884001483 Acetokinase family; Region: Acetate_kinase; cl01029 882884001484 Protein of unknown function, DUF412; Region: DUF412; cl01183 882884001485 YfbU domain; Region: YfbU; cl01137 882884001486 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; cl11391 882884001487 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 882884001488 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 882884001489 motif II; other site 882884001490 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 882884001491 transmembrane helices; other site 882884001492 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 882884001493 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 882884001494 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 882884001495 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 882884001496 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 882884001497 tyrosine aminotransferase, eukaryotic; Region: tyr_amTase_E; TIGR01264 882884001498 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 882884001499 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884001500 homodimer interface [polypeptide binding]; other site 882884001501 catalytic residue [active] 882884001502 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 882884001503 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884001504 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 882884001505 putative dimerization interface [polypeptide binding]; other site 882884001506 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 882884001507 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 882884001508 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl00539 882884001509 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 882884001510 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 882884001511 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 882884001512 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...; Region: TRX_Fd_NuoE; cd03064 882884001513 putative dimer interface [polypeptide binding]; other site 882884001514 [2Fe-2S] cluster binding site [ion binding]; other site 882884001515 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 882884001516 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 882884001517 SLBB domain; Region: SLBB; pfam10531 882884001518 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 882884001519 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 882884001520 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 882884001521 catalytic loop [active] 882884001522 iron binding site [ion binding]; other site 882884001523 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 882884001524 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 882884001525 [4Fe-4S] binding site [ion binding]; other site 882884001526 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 882884001527 NADH dehydrogenase; Region: NADHdh; cl00469 882884001528 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 882884001529 4Fe-4S binding domain; Region: Fer4; cl02805 882884001530 4Fe-4S binding domain; Region: Fer4; cl02805 882884001531 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 882884001532 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 882884001533 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 882884001534 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 882884001535 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 882884001536 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 882884001537 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 882884001538 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 882884001539 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 882884001540 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 882884001541 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 882884001542 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 882884001543 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884001544 active site 882884001545 phosphorylation site [posttranslational modification] 882884001546 intermolecular recognition site; other site 882884001547 dimerization interface [polypeptide binding]; other site 882884001548 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 882884001549 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 882884001550 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 882884001551 menaquinone-specific isochorismate synthase; Provisional; Region: PRK15012 882884001552 chorismate binding enzyme; Region: Chorismate_bind; cl10555 882884001553 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 882884001554 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 882884001555 dimer interface [polypeptide binding]; other site 882884001556 tetramer interface [polypeptide binding]; other site 882884001557 PYR/PP interface [polypeptide binding]; other site 882884001558 TPP binding site [chemical binding]; other site 882884001559 TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key role in the menaquinone biosynthetic pathway, converting...; Region: TPP_SHCHC_synthase; cd02009 882884001560 TPP-binding site; other site 882884001561 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 882884001562 dihydroxynaphthoic acid synthetase; Validated; Region: PRK07396 882884001563 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 882884001564 substrate binding site [chemical binding]; other site 882884001565 oxyanion hole (OAH) forming residues; other site 882884001566 trimer interface [polypeptide binding]; other site 882884001567 O-succinylbenzoate synthase; Provisional; Region: PRK05105 882884001568 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway...; Region: OSBS; cd03320 882884001569 active site 882884001570 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 882884001571 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 882884001572 Polymyxin resistance protein PmrD; Region: PmrD; cl12732 882884001573 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 882884001574 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 882884001575 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 882884001576 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 882884001577 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 882884001578 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884001579 inhibitor-cofactor binding pocket; inhibition site 882884001580 catalytic residue [active] 882884001581 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 882884001582 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 882884001583 catalytic core [active] 882884001584 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...; Region: Nudix_Hydrolase; cl00447 882884001585 YfaZ precursor; Region: YfaZ; pfam07437 882884001586 hypothetical protein; Provisional; Region: PRK03673 882884001587 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 882884001588 putative MPT binding site; other site 882884001589 Competence-damaged protein; Region: CinA; cl00666 882884001590 deubiquitinase; Provisional; Region: PRK11836; cl08202 882884001591 C subunit; Region: glycerol3P_GlpC; TIGR03379 882884001592 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 alpha-; Region: HCP_like; cl14655 882884001593 Cysteine-rich domain; Region: CCG; pfam02754 882884001594 Cysteine-rich domain; Region: CCG; pfam02754 882884001595 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl10040 882884001596 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 882884001597 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 882884001598 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 882884001599 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 882884001600 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 882884001601 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 882884001602 putative substrate translocation pore; other site 882884001603 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 882884001604 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 882884001605 active site 882884001606 catalytic site [active] 882884001607 metal binding site [ion binding]; metal-binding site 882884001608 Transcriptional regulator [Transcription]; Region: LysR; COG0583 882884001609 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884001610 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 882884001611 dimerization interface [polypeptide binding]; other site 882884001612 Major Facilitator Superfamily; Region: MFS_1; pfam07690 882884001613 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 882884001614 putative substrate translocation pore; other site 882884001615 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 882884001616 catalytic loop [active] 882884001617 iron binding site [ion binding]; other site 882884001618 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 882884001619 dimer interface [polypeptide binding]; other site 882884001620 putative radical transfer pathway; other site 882884001621 diiron center [ion binding]; other site 882884001622 tyrosyl radical; other site 882884001623 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 882884001624 ATP cone domain; Region: ATP-cone; pfam03477 882884001625 Class I ribonucleotide reductase; Region: RNR_I; cd01679 882884001626 active site 882884001627 dimer interface [polypeptide binding]; other site 882884001628 catalytic residues [active] 882884001629 effector binding site; other site 882884001630 R2 peptide binding site; other site 882884001631 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 882884001632 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 882884001633 S-adenosylmethionine binding site [chemical binding]; other site 882884001634 DNA gyrase subunit A; Validated; Region: PRK05560 882884001635 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in...; Region: TOP4c; cd00187 882884001636 CAP-like domain; other site 882884001637 Active site [active] 882884001638 primary dimer interface [polypeptide binding]; other site 882884001639 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 882884001640 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 882884001641 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 882884001642 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 882884001643 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 882884001644 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 882884001645 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 882884001646 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 trans-...; Region: HisKA; cl00080 882884001647 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884001648 ATP binding site [chemical binding]; other site 882884001649 Mg2+ binding site [ion binding]; other site 882884001650 G-X-G motif; other site 882884001651 RcsC Alpha-Beta-Loop (ABL); Region: RcsC; pfam09456 882884001652 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884001653 active site 882884001654 phosphorylation site [posttranslational modification] 882884001655 intermolecular recognition site; other site 882884001656 dimerization interface [polypeptide binding]; other site 882884001657 transcriptional regulator RcsB; Provisional; Region: PRK10840 882884001658 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884001659 active site 882884001660 phosphorylation site [posttranslational modification] 882884001661 intermolecular recognition site; other site 882884001662 dimerization interface [polypeptide binding]; other site 882884001663 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...; Region: LuxR_C_like; cd06170 882884001664 DNA binding residues [nucleotide binding] 882884001665 dimerization interface [polypeptide binding]; other site 882884001666 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...; Region: OM_channels; cl00284 882884001667 ApbE family; Region: ApbE; cl00643 882884001668 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 882884001669 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 882884001670 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882884001671 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 882884001672 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 882884001673 DNA binding site [nucleotide binding] 882884001674 active site 882884001675 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 882884001676 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 882884001677 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with...; Region: ABCC_MRP_Like; cd03228 882884001678 Walker A/P-loop; other site 882884001679 ATP binding site [chemical binding]; other site 882884001680 Q-loop/lid; other site 882884001681 ABC transporter signature motif; other site 882884001682 Walker B; other site 882884001683 D-loop; other site 882884001684 H-loop/switch region; other site 882884001685 Sulfate transporter family; Region: Sulfate_transp; cl00967 882884001686 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cd00242 882884001687 secondary substrate binding site; other site 882884001688 primary substrate binding site; other site 882884001689 inhibition loop; other site 882884001690 dimerization interface [polypeptide binding]; other site 882884001691 ferredoxin-type protein; Provisional; Region: PRK10194 882884001692 NapD protein; Region: NapD; cl01163 882884001693 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 882884001694 NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol oxidation via a membrane-anchored...; Region: MopB_Nitrate-R-NapA-like; cd02754 882884001695 [4Fe-4S] binding site [ion binding]; other site 882884001696 molybdopterin cofactor binding site; other site 882884001697 NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol oxidation via a membrane-anchored...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 882884001698 molybdopterin cofactor binding site; other site 882884001699 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 882884001700 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 882884001701 4Fe-4S binding domain; Region: Fer4_5; pfam12801 882884001702 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 alpha-; Region: HCP_like; cl14655 882884001703 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 882884001704 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl09485 882884001705 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 882884001706 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 882884001707 CcmA, the ATP-binding component of the bacterial CcmAB transporter. The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH); Region: ABC_CcmA_heme_exporter; cd03231 882884001708 Walker A/P-loop; other site 882884001709 ATP binding site [chemical binding]; other site 882884001710 Q-loop/lid; other site 882884001711 ABC transporter signature motif; other site 882884001712 Walker B; other site 882884001713 D-loop; other site 882884001714 H-loop/switch region; other site 882884001715 CcmB protein; Region: CcmB; cl01016 882884001716 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 882884001717 Heme exporter protein D (CcmD); Region: CcmD; cl11475 882884001718 CcmE; Region: CcmE; cl00994 882884001719 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 882884001720 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 882884001721 catalytic residues [active] 882884001722 central insert; other site 882884001723 Cytochrome C biogenesis protein; Region: CcmH; cl01179 882884001724 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 882884001725 transcriptional regulator NarP; Provisional; Region: PRK10403 882884001726 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884001727 active site 882884001728 phosphorylation site [posttranslational modification] 882884001729 intermolecular recognition site; other site 882884001730 dimerization interface [polypeptide binding]; other site 882884001731 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...; Region: LuxR_C_like; cd06170 882884001732 DNA binding residues [nucleotide binding] 882884001733 dimerization interface [polypeptide binding]; other site 882884001734 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases...; Region: lysozyme_like; cl00222 882884001735 catalytic residue [active] 882884001736 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 882884001737 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 882884001738 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 882884001739 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 882884001740 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 882884001741 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 882884001742 virulence protein SpvB; Provisional; Region: PRK15244 882884001743 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 882884001744 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 882884001745 Salmonella virulence plasmid 28.1kDa A protein; Region: VRP1; cl04143 882884001746 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884001747 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 882884001748 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 882884001749 Sulfatase; Region: Sulfatase; cl10460 882884001750 Protein of unknown function (DUF1414); Region: DUF1414; cl01175 882884001751 Nucleoid-associated protein [General function prediction only]; Region: COG3081 882884001752 nucleoid-associated protein NdpA; Validated; Region: PRK00378 882884001753 Ribosomal_L25_TL5_CTC: Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain. L25 is a single-domain protein, homologous to the N-terminal domain of TL5 and CTC, which each contain two domains. CTC is a known stress protein, and proteins of this...; Region: Ribosomal_L25_TL5_CTC; cd00495 882884001754 5S rRNA interface [nucleotide binding]; other site 882884001755 CTC domain interface; other site 882884001756 L16 interface [polypeptide binding]; other site 882884001757 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 882884001758 ATP binding site [chemical binding]; other site 882884001759 putative Mg++ binding site [ion binding]; other site 882884001760 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 882884001761 nucleotide binding region [chemical binding]; other site 882884001762 ATP-binding site [chemical binding]; other site 882884001763 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 882884001764 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 882884001765 RNA binding surface [nucleotide binding]; other site 882884001766 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 882884001767 active site 882884001768 uracil binding [chemical binding]; other site 882884001769 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 882884001770 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 882884001771 putative substrate translocation pore; other site 882884001772 hypothetical protein; Provisional; Region: PRK11835 882884001773 microcin C ABC transporter ATP-binding protein YejF; Provisional; Region: PRK15134 882884001774 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 882884001775 Walker A/P-loop; other site 882884001776 ATP binding site [chemical binding]; other site 882884001777 Q-loop/lid; other site 882884001778 ABC transporter signature motif; other site 882884001779 Walker B; other site 882884001780 D-loop; other site 882884001781 H-loop/switch region; other site 882884001782 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 882884001783 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 882884001784 Walker A/P-loop; other site 882884001785 ATP binding site [chemical binding]; other site 882884001786 Q-loop/lid; other site 882884001787 ABC transporter signature motif; other site 882884001788 Walker B; other site 882884001789 D-loop; other site 882884001790 H-loop/switch region; other site 882884001791 microcin C ABC transporter permease; Provisional; Region: PRK15021 882884001792 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...; Region: TM_PBP2; cd06261 882884001793 dimer interface [polypeptide binding]; other site 882884001794 conserved gate region; other site 882884001795 ABC-ATPase subunit interface; other site 882884001796 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 882884001797 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...; Region: TM_PBP2; cd06261 882884001798 dimer interface [polypeptide binding]; other site 882884001799 conserved gate region; other site 882884001800 putative PBP binding loops; other site 882884001801 ABC-ATPase subunit interface; other site 882884001802 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 882884001803 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 882884001804 phage resistance protein; Provisional; Region: PRK10551 882884001805 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 882884001806 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 882884001807 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 882884001808 NlpC/P60 family; Region: NLPC_P60; cl11438 882884001809 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 882884001810 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 882884001811 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 882884001812 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 882884001813 elongation factor P; Provisional; Region: PRK04542 882884001814 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 882884001815 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 882884001816 RNA binding site [nucleotide binding]; other site 882884001817 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 882884001818 RNA binding site [nucleotide binding]; other site 882884001819 sugar efflux transporter B; Provisional; Region: PRK15011 882884001820 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 882884001821 putative substrate translocation pore; other site 882884001822 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 882884001823 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 882884001824 active site 882884001825 phosphorylation site [posttranslational modification] 882884001826 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 882884001827 dimerization domain swap beta strand [polypeptide binding]; other site 882884001828 regulatory protein interface [polypeptide binding]; other site 882884001829 active site 882884001830 regulatory phosphorylation site [posttranslational modification]; other site 882884001831 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 882884001832 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 882884001833 putative substrate binding site [chemical binding]; other site 882884001834 putative ATP binding site [chemical binding]; other site 882884001835 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 882884001836 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 882884001837 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA...; Region: PTS_IIB_fructose; cd05569 882884001838 P-loop; other site 882884001839 active site 882884001840 phosphorylation site [posttranslational modification] 882884001841 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 882884001842 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 882884001843 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 882884001844 ligand binding site [chemical binding]; other site 882884001845 flexible hinge region; other site 882884001846 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 882884001847 active site 882884001848 tetramer interface [polypeptide binding]; other site 882884001849 nucleoside transporter; Region: nupC; TIGR00804 882884001850 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 882884001851 Nucleoside recognition; Region: Gate; cl00486 882884001852 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 882884001853 endonuclease IV; Provisional; Region: PRK01060 882884001854 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 D-arabino-6-...; Region: AP2Ec; cd00019 882884001855 AP (apurinic/apyrimidinic) site pocket; other site 882884001856 DNA interaction; other site 882884001857 Metal-binding active site; metal-binding site 882884001858 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 882884001859 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 882884001860 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884001861 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 882884001862 putative dimerization interface [polypeptide binding]; other site 882884001863 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 882884001864 Amino acid permease; Region: AA_permease; pfam00324 882884001865 catecholate siderophore receptor CirA; Provisional; Region: PRK10064 882884001866 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 882884001867 N-terminal plug; other site 882884001868 ligand-binding site [chemical binding]; other site 882884001869 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 882884001870 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 882884001871 putative substrate translocation pore; other site 882884001872 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; cl11391 882884001873 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 882884001874 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 882884001875 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 882884001876 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 882884001877 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 882884001878 Predicted esterase [General function prediction only]; Region: COG0627 882884001879 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 882884001880 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 882884001881 GTP cyclohydrolase I; Provisional; Region: PLN03044 882884001882 active site 882884001883 Predicted membrane protein [Function unknown]; Region: COG2311 882884001884 Protein of unknown function (DUF418); Region: DUF418; cl12135 882884001885 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 882884001886 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 882884001887 DNA binding site [nucleotide binding] 882884001888 domain linker motif; other site 882884001889 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 882884001890 dimerization interface (closed form) [polypeptide binding]; other site 882884001891 ligand binding site [chemical binding]; other site 882884001892 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 882884001893 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 882884001894 ligand binding site [chemical binding]; other site 882884001895 calcium binding site [ion binding]; other site 882884001896 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and...; Region: ABC_Carb_Monos_I; cd03216 882884001897 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 882884001898 Walker A/P-loop; other site 882884001899 ATP binding site [chemical binding]; other site 882884001900 Q-loop/lid; other site 882884001901 ABC transporter signature motif; other site 882884001902 Walker B; other site 882884001903 D-loop; other site 882884001904 H-loop/switch region; other site 882884001905 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (; Region: ABC_Carb_Monos_II; cd03215 882884001906 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 882884001907 TM-ABC transporter signature motif; other site 882884001908 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 882884001909 IS2 transposase TnpB; Reviewed; Region: PRK09409 882884001910 Integrase core domain; Region: rve; cl01316 882884001911 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; cl01116 882884001912 Post-segregation antitoxin CcdA; Region: CcdA; cl02188 882884001913 CcdB protein; Region: CcdB; cl03380 882884001914 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 882884001915 Protein of unknown function (DUF2542); Region: DUF2542; pfam10808 882884001916 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 882884001917 putative active site [active] 882884001918 cytidine deaminase; Provisional; Region: PRK09027 882884001919 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 882884001920 active site 882884001921 catalytic motif [active] 882884001922 Zn binding site [ion binding]; other site 882884001923 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 882884001924 active site 882884001925 catalytic motif [active] 882884001926 Zn binding site [ion binding]; other site 882884001927 LrgB-like family; Region: LrgB; cl00596 882884001928 LrgA family; Region: LrgA; cl00608 882884001929 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 882884001930 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884001931 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884001932 dimerization interface [polypeptide binding]; other site 882884001933 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884001934 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 882884001935 putative substrate translocation pore; other site 882884001936 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 882884001937 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...; Region: DUS_like_FMN; cd02801 882884001938 FMN binding site [chemical binding]; other site 882884001939 active site 882884001940 catalytic residues [active] 882884001941 substrate binding site [chemical binding]; other site 882884001942 multidrug resistance outer membrane protein MdtQ; Provisional; Region: PRK11459 882884001943 Outer membrane efflux protein; Region: OEP; pfam02321 882884001944 Outer membrane efflux protein; Region: OEP; pfam02321 882884001945 oxidoreductase; Provisional; Region: PRK12743 882884001946 classical (c) SDRs; Region: SDR_c; cd05233 882884001947 NAD(P) binding site [chemical binding]; other site 882884001948 active site 882884001949 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 882884001950 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 882884001951 Yip1 domain; Region: Yip1; cl12048 882884001952 Beta-lactamase; Region: Beta-lactamase; cl01009 882884001953 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 882884001954 D-lactate dehydrogenase; Provisional; Region: PRK11183 882884001955 FAD binding domain; Region: FAD_binding_4; pfam01565 882884001956 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 882884001957 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 882884001958 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 882884001959 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 882884001960 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884001961 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 882884001962 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...; Region: TM_PBP2; cl00427 882884001963 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 882884001964 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family...; Region: ABC_OpuCA_Osmoprotection; cd03295 882884001965 Walker A/P-loop; other site 882884001966 ATP binding site [chemical binding]; other site 882884001967 Q-loop/lid; other site 882884001968 ABC transporter signature motif; other site 882884001969 Walker B; other site 882884001970 D-loop; other site 882884001971 H-loop/switch region; other site 882884001972 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 882884001973 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...; Region: TM_PBP2; cl00427 882884001974 transcriptional regulator MirA; Provisional; Region: PRK15043 882884001975 Helix-Turn-Helix DNA binding domain of MlrA-like transcription regulators; Region: HTH_MlrA-like; cd04763 882884001976 DNA binding residues [nucleotide binding] 882884001977 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 882884001978 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 882884001979 GAF domain; Region: GAF; cl00853 882884001980 Histidine kinase; Region: His_kinase; pfam06580 882884001981 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884001982 ATP binding site [chemical binding]; other site 882884001983 Mg2+ binding site [ion binding]; other site 882884001984 G-X-G motif; other site 882884001985 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 882884001986 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884001987 active site 882884001988 phosphorylation site [posttranslational modification] 882884001989 intermolecular recognition site; other site 882884001990 dimerization interface [polypeptide binding]; other site 882884001991 LytTr DNA-binding domain; Region: LytTR; cl04498 882884001992 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 882884001993 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 882884001994 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 882884001995 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 882884001996 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 882884001997 active site 882884001998 HIGH motif; other site 882884001999 KMSKS motif; other site 882884002000 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 882884002001 tRNA binding surface [nucleotide binding]; other site 882884002002 anticodon binding site; other site 882884002003 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 882884002004 dimer interface [polypeptide binding]; other site 882884002005 putative tRNA-binding site [nucleotide binding]; other site 882884002006 antiporter inner membrane protein; Provisional; Region: PRK11670 882884002007 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 882884002008 Walker A motif; other site 882884002009 Protein of unknown function (DUF2574); Region: DUF2574; pfam10836 882884002010 Fimbrial protein; Region: Fimbrial; cl01416 882884002011 fimbrial chaperone protein PegB; Provisional; Region: PRK15218 882884002012 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 882884002013 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 882884002014 fimbrial outer membrane usher protein; Provisional; Region: PRK15217 882884002015 pilin outer membrane usher protein SafC; Provisional; Region: PRK15223; cl14650 882884002016 putative fimbrial-like adhesin protein StcD; Provisional; Region: PRK15252; cl14699 882884002017 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 882884002018 TPP riboswitch (THI element) 882884002019 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 882884002020 substrate binding site [chemical binding]; other site 882884002021 multimerization interface [polypeptide binding]; other site 882884002022 ATP binding site [chemical binding]; other site 882884002023 bifunctional hydroxy-methylpyrimidine kinase/ hydroxy-phosphomethylpyrimidine kinase; Reviewed; Region: PRK06427 882884002024 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 882884002025 dimer interface [polypeptide binding]; other site 882884002026 substrate binding site [chemical binding]; other site 882884002027 ATP binding site [chemical binding]; other site 882884002028 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 882884002029 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882884002030 DNA-binding site [nucleotide binding]; DNA binding site 882884002031 UTRA domain; Region: UTRA; cl06649 882884002032 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 882884002033 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 882884002034 putative active site; other site 882884002035 catalytic residue [active] 882884002036 lipid kinase; Reviewed; Region: PRK13054 882884002037 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 882884002038 Tir chaperone protein (CesT); Region: CesT; cl08444 882884002039 putative protease; Provisional; Region: PRK15452 882884002040 Peptidase family U32; Region: Peptidase_U32; cl03113 882884002041 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 882884002042 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884002043 active site 882884002044 phosphorylation site [posttranslational modification] 882884002045 intermolecular recognition site; other site 882884002046 dimerization interface [polypeptide binding]; other site 882884002047 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...; Region: trans_reg_C; cd00383 882884002048 DNA binding site [nucleotide binding] 882884002049 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 882884002050 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 connected by an extended linker. The...; Region: HAMP; cd06225 882884002051 dimerization interface [polypeptide binding]; other site 882884002052 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 trans-...; Region: HisKA; cd00082 882884002053 dimer interface [polypeptide binding]; other site 882884002054 phosphorylation site [posttranslational modification] 882884002055 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884002056 ATP binding site [chemical binding]; other site 882884002057 Mg2+ binding site [ion binding]; other site 882884002058 G-X-G motif; other site 882884002059 putative transporter; Provisional; Region: PRK10504 882884002060 putative transporter; Provisional; Region: PRK10504 882884002061 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 882884002062 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 882884002063 Protein export membrane protein; Region: SecD_SecF; cl14618 882884002064 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 882884002065 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...; Region: Biotinyl_lipoyl_domains; cl11404 882884002066 putative chaperone; Provisional; Region: PRK11678 882884002067 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 882884002068 AlkA N-terminal domain; Region: AlkA_N; pfam06029 882884002069 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 882884002070 minor groove reading motif; other site 882884002071 helix-hairpin-helix signature motif; other site 882884002072 substrate binding pocket [chemical binding]; other site 882884002073 active site 882884002074 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 882884002075 MASE1; Region: MASE1; pfam05231 882884002076 PAS domain S-box; Region: sensory_box; TIGR00229 882884002077 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 882884002078 putative active site [active] 882884002079 heme pocket [chemical binding]; other site 882884002080 PAS domain S-box; Region: sensory_box; TIGR00229 882884002081 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 882884002082 putative active site [active] 882884002083 heme pocket [chemical binding]; other site 882884002084 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882884002085 metal binding site [ion binding]; metal-binding site 882884002086 active site 882884002087 I-site; other site 882884002088 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 882884002089 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage...; Region: UMPK; cd02023 882884002090 Pyrimidine base specificity; other site 882884002091 Sugar specificity; other site 882884002092 ATP-binding site [chemical binding]; other site 882884002093 2'-deoxycytidine 5'-triphosphate deaminase (DCD); Region: DCD; pfam06559 882884002094 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 882884002095 trimer interface [polypeptide binding]; other site 882884002096 active site 882884002097 putative assembly protein; Provisional; Region: PRK10833 882884002098 Integral membrane protein TerC family; Region: TerC; cl10468 882884002099 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 882884002100 Transporter associated domain; Region: CorC_HlyC; pfam03471 882884002101 polysaccharide export protein Wza; Provisional; Region: PRK15078 882884002102 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 882884002103 Low molecular weight phosphatase family; Region: LMWPc; cd00115 882884002104 Active site [active] 882884002105 tyrosine kinase; Provisional; Region: PRK11519 882884002106 Chain length determinant protein; Region: Wzz; cl01623 882884002107 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 882884002108 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 882884002109 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 882884002110 active site 882884002111 putative acyl transferase; Provisional; Region: PRK10191 882884002112 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 L-...; Region: LbH_SAT; cd03354 882884002113 trimer interface [polypeptide binding]; other site 882884002114 active site 882884002115 substrate binding site [chemical binding]; other site 882884002116 CoA binding site [chemical binding]; other site 882884002117 colanic acid biosynthesis glycosyl transferase WcaC; Region: WcaC; TIGR04015 882884002118 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 882884002119 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 882884002120 putative colanic acid biosynthesis protein; Provisional; Region: wcaD; cl08075 882884002121 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 882884002122 metal binding site [ion binding]; metal-binding site 882884002123 colanic acid biosynthesis acetyltransferase WcaF; Region: WcaF; TIGR04008 882884002124 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 882884002125 putative trimer interface [polypeptide binding]; other site 882884002126 putative active site [active] 882884002127 putative substrate binding site [chemical binding]; other site 882884002128 putative CoA binding site [chemical binding]; other site 882884002129 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 882884002130 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 882884002131 NADP-binding site; other site 882884002132 homotetramer interface [polypeptide binding]; other site 882884002133 substrate binding site [chemical binding]; other site 882884002134 homodimer interface [polypeptide binding]; other site 882884002135 active site 882884002136 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 882884002137 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 882884002138 NADP binding site [chemical binding]; other site 882884002139 active site 882884002140 putative substrate binding site [chemical binding]; other site 882884002141 GDP-mannose glycosyl hydrolase (AKA GDP-mannose mannosyl hydrolase (GDPMH)) is a member of the Nudix hydrolase superfamily. This class of enzymes is unique from other members of the superfamily in two aspects. First, it contains a modified Nudix...; Region: GDPMH; cd03430 882884002142 active site 882884002143 GDP-Mannose binding site [chemical binding]; other site 882884002144 dimer interface [polypeptide binding]; other site 882884002145 modified nudix motif 882884002146 metal binding site [ion binding]; metal-binding site 882884002147 colanic acid biosynthesis glycosyl transferase WcaI; Region: wcaI; TIGR04007 882884002148 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 882884002149 mannose-1-phosphate guanyltransferase; Provisional; Region: cpsB; PRK15460 882884002150 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 882884002151 Substrate binding site [chemical binding]; other site 882884002152 Cupin domain; Region: Cupin_2; cl09118 882884002153 phosphomannomutase CpsG; Provisional; Region: PRK15414 882884002154 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 882884002155 active site 882884002156 substrate binding site [chemical binding]; other site 882884002157 metal binding site [ion binding]; metal-binding site 882884002158 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 882884002159 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 882884002160 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 882884002161 NAD(P) binding site [chemical binding]; other site 882884002162 homodimer interface [polypeptide binding]; other site 882884002163 substrate binding site [chemical binding]; other site 882884002164 active site 882884002165 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 882884002166 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 882884002167 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 882884002168 NADP binding site [chemical binding]; other site 882884002169 active site 882884002170 putative substrate binding site [chemical binding]; other site 882884002171 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 882884002172 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 882884002173 active site 882884002174 homodimer interface [polypeptide binding]; other site 882884002175 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 882884002176 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 882884002177 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884002178 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 882884002179 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 882884002180 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 882884002181 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884002182 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 882884002183 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 882884002184 Chain length determinant protein; Region: Wzz; cl01623 882884002185 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 882884002186 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 882884002187 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 882884002188 Imidazoleglycerol-phosphate synthase [Amino acid transport and metabolism]; Region: HisF; COG0107 882884002189 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)-formimino-5-; Region: HisF; cd04731 882884002190 substrate binding site [chemical binding]; other site 882884002191 glutamase interaction surface [polypeptide binding]; other site 882884002192 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 882884002193 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 882884002194 catalytic residues [active] 882884002195 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 882884002196 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 882884002197 putative active site [active] 882884002198 oxyanion strand; other site 882884002199 catalytic triad [active] 882884002200 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 882884002201 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 882884002202 active site 882884002203 motif I; other site 882884002204 motif II; other site 882884002205 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 882884002206 putative active site pocket [active] 882884002207 4-fold oligomerization interface [polypeptide binding]; other site 882884002208 metal binding residues [ion binding]; metal-binding site 882884002209 3-fold/trimer interface [polypeptide binding]; other site 882884002210 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 882884002211 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 882884002212 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884002213 homodimer interface [polypeptide binding]; other site 882884002214 catalytic residue [active] 882884002215 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 882884002216 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 oxidation of L-histidinol to L-...; Region: Histidinol_dh; cd06572 882884002217 NAD binding site [chemical binding]; other site 882884002218 dimerization interface [polypeptide binding]; other site 882884002219 product binding site; other site 882884002220 substrate binding site [chemical binding]; other site 882884002221 zinc binding site [ion binding]; other site 882884002222 catalytic residues [active] 882884002223 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 882884002224 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884002225 HisG, C-terminal domain; Region: HisG_C; cl06867 882884002226 histidine operon leader 882884002227 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 882884002228 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 882884002229 putative NAD(P) binding site [chemical binding]; other site 882884002230 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 882884002231 exonuclease I; Provisional; Region: sbcB; PRK11779 882884002232 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 882884002233 active site 882884002234 substrate binding site [chemical binding]; other site 882884002235 catalytic site [active] 882884002236 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 882884002237 thiosulfate reductase PhsA; Provisional; Region: PRK15488 882884002238 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 882884002239 putative [Fe4-S4] binding site [ion binding]; other site 882884002240 putative molybdopterin cofactor binding site [chemical binding]; other site 882884002241 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 882884002242 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound...; Region: MopB_CT_Thiosulfate-R-like; cd02778 882884002243 putative molybdopterin cofactor binding site; other site 882884002244 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 882884002245 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 882884002246 D-alanyl-D-alanine carboxypeptidase; Provisional; Region: dacD; PRK11397 882884002247 Beta-lactamase; Region: Beta-lactamase; cl01009 882884002248 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 882884002249 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 882884002250 Predicted membrane protein [Function unknown]; Region: COG1289 882884002251 Protein of unknown function (DUF496); Region: DUF496; cl09955 882884002252 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 882884002253 Acetokinase family; Region: Acetate_kinase; cl01029 882884002254 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 882884002255 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 882884002256 putative hexamer interface [polypeptide binding]; other site 882884002257 putative hexagonal pore; other site 882884002258 ethanolamine utilization protein, PduT homolog; Region: eut_PduT; TIGR02526 882884002259 Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 882884002260 putative hexamer interface [polypeptide binding]; other site 882884002261 putative hexagonal pore; other site 882884002262 Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 882884002263 putative hexamer interface [polypeptide binding]; other site 882884002264 putative hexagonal pore; other site 882884002265 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 882884002266 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 882884002267 SLBB domain; Region: SLBB; pfam10531 882884002268 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 882884002269 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 882884002270 putative active site [active] 882884002271 metal binding site [ion binding]; metal-binding site 882884002272 aldehyde dehydrogenase EutE; Provisional; Region: PRK15398 882884002273 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 882884002274 putative catalytic cysteine [active] 882884002275 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 882884002276 Domain of unknown function (DUF336); Region: DUF336; cl01249 882884002277 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cl01889 882884002278 Hexamer/Pentamer interface [polypeptide binding]; other site 882884002279 central pore; other site 882884002280 putative propanediol utilization protein PduM; Provisional; Region: PRK15428 882884002281 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 882884002282 Propanediol utilisation protein PduL; Region: PduL; pfam06130 882884002283 Propanediol utilisation protein PduL; Region: PduL; pfam06130 882884002284 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 882884002285 Bacterial Micro-Compartment (BMC) domain repeat 1l; Region: BMC_PduK; cd07056 882884002286 putative hexamer interface [polypeptide binding]; other site 882884002287 putative hexagonal pore; other site 882884002288 Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 882884002289 Hexamer interface [polypeptide binding]; other site 882884002290 Putative hexagonal pore residue; other site 882884002291 Dehydratase medium subunit; Region: Dehydratase_MU; cl03516 882884002292 Cell division protein FtsA; Region: FtsA; cl11496 882884002293 Diol dehydratase reactivase ATPase-like domain; Region: DDR; pfam08841 882884002294 Dehydratase small subunit; Region: Dehydratase_SU; cl02055 882884002295 Dehydratase medium subunit; Region: Dehydratase_MU; cl03516 882884002296 Propanediol dehydratase, large subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduC; COG4909 882884002297 Dehydratase large subunit. This family contains the large (alpha) subunit of B12-dependent glycerol dehydratases (GDHs) and B12-dependent diol dehydratases (DDHs). GDH is isofunctional with DDH. These enzymes can each catalyze the conversion of 1,2-...; Region: Dehydratase_LU; cd03687 882884002298 alpha-alpha subunit/dimer interface [polypeptide binding]; other site 882884002299 alpha-beta subunit interface [polypeptide binding]; other site 882884002300 alpha-gamma subunit interface [polypeptide binding]; other site 882884002301 active site 882884002302 substrate and K+ binding site; other site 882884002303 K+ binding site [ion binding]; other site 882884002304 cobalamin binding site [chemical binding]; other site 882884002305 propanediol utilization protein PduB; Provisional; Region: PRK15415 882884002306 Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduB_repeat1; cd07047 882884002307 putative hexamer interface [polypeptide binding]; other site 882884002308 putative hexagonal pore; other site 882884002309 Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 882884002310 putative hexamer interface [polypeptide binding]; other site 882884002311 putative hexagonal pore; other site 882884002312 Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 882884002313 Hexamer interface [polypeptide binding]; other site 882884002314 Putative hexagonal pore residue; other site 882884002315 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-...; Region: MIP; cd00333 882884002316 amphipathic channel; other site 882884002317 Asn-Pro-Ala signature motifs; other site 882884002318 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 882884002319 Predicted histidine kinase sensor domain; Region: Hist_Kin_Sens; pfam10114 882884002320 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882884002321 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 882884002322 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882884002323 cobalamin riboswitch 882884002324 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 882884002325 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 882884002326 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 882884002327 catalytic triad [active] 882884002328 CobD/Cbib protein; Region: CobD_Cbib; cl00561 882884002329 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 882884002330 Precorrin-8X methylmutase; Region: CbiC; pfam02570 882884002331 CbiD; Region: CbiD; cl00828 882884002332 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 882884002333 cobalt-precorrin-6Y C(15)-methyltransferase; Validated; Region: PRK08287 882884002334 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 882884002335 S-adenosylmethionine binding site [chemical binding]; other site 882884002336 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 882884002337 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 882884002338 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 882884002339 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 882884002340 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 882884002341 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 882884002342 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 882884002343 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 882884002344 Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]; Region: CbiK; COG4822 882884002345 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 882884002346 active site 882884002347 C-terminal domain interface [polypeptide binding]; other site 882884002348 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 882884002349 active site 882884002350 N-terminal domain interface [polypeptide binding]; other site 882884002351 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 882884002352 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 882884002353 Cobalt transport protein component CbiN; Region: CbiN; cl00842 882884002354 Cobalt transport protein; Region: CbiQ; cl00463 882884002355 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13638 882884002356 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 882884002357 Walker A/P-loop; other site 882884002358 ATP binding site [chemical binding]; other site 882884002359 Q-loop/lid; other site 882884002360 ABC transporter signature motif; other site 882884002361 Walker B; other site 882884002362 D-loop; other site 882884002363 H-loop/switch region; other site 882884002364 cobyric acid synthase; Provisional; Region: PRK00784 882884002365 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 882884002366 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 882884002367 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 882884002368 catalytic triad [active] 882884002369 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is...; Region: CobU; cd00544 882884002370 homotrimer interface [polypeptide binding]; other site 882884002371 Walker A motif; other site 882884002372 GTP binding site [chemical binding]; other site 882884002373 Walker B motif; other site 882884002374 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 882884002375 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 882884002376 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 882884002377 putative dimer interface [polypeptide binding]; other site 882884002378 active site pocket [active] 882884002379 putative cataytic base [active] 882884002380 L,D-transpeptidase; Provisional; Region: PRK10190 882884002381 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 882884002382 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 882884002383 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 882884002384 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 882884002385 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 882884002386 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 882884002387 MATE family multidrug exporter; Provisional; Region: PRK10189 882884002388 MatE; Region: MatE; pfam01554 882884002389 MatE; Region: MatE; pfam01554 882884002390 AMP nucleosidase; Provisional; Region: PRK08292 882884002391 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 882884002392 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 882884002393 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 882884002394 Peptidase family C69; Region: Peptidase_C69; cl01920 882884002395 putative transposase OrfB; Reviewed; Region: PHA02517 882884002396 Integrase core domain; Region: rve; cl01316 882884002397 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; cl01116 882884002398 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884002399 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 882884002400 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...; Region: TM_PBP2; cd06261 882884002401 dimer interface [polypeptide binding]; other site 882884002402 conserved gate region; other site 882884002403 putative PBP binding loops; other site 882884002404 ABC-ATPase subunit interface; other site 882884002405 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...; Region: TM_PBP2; cl00427 882884002406 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 882884002407 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884002408 Walker A/P-loop; other site 882884002409 ATP binding site [chemical binding]; other site 882884002410 Q-loop/lid; other site 882884002411 ABC transporter signature motif; other site 882884002412 Walker B; other site 882884002413 D-loop; other site 882884002414 H-loop/switch region; other site 882884002415 TOBE domain; Region: TOBE_2; cl01440 882884002416 E3 ubiquitin-protein ligase SspH2; Provisional; Region: PRK15387 882884002417 pathogenicity island 2 effector protein SseI; Provisional; Region: PRK15372 882884002418 Type III secretion system leucine rich repeat protein; Region: TTSSLRR; pfam12468 882884002419 type III secretion protein GogB; Provisional; Region: PRK15386 882884002420 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 882884002421 amidase catalytic site [active] 882884002422 Zn binding residues [ion binding]; other site 882884002423 substrate binding site [chemical binding]; other site 882884002424 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 882884002425 DNA binding site [nucleotide binding] 882884002426 active site 882884002427 Int/Topo IB signature motif; other site 882884002428 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 882884002429 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 882884002430 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 882884002431 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 882884002432 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 882884002433 Integrase core domain; Region: rve; cl01316 882884002434 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 882884002435 Protein of unknown function (DUF796); Region: DUF796; cl01226 882884002436 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 882884002437 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 882884002438 integrase; Provisional; Region: PRK09692 882884002439 putative transposase OrfB; Reviewed; Region: PHA02517 882884002440 Integrase core domain; Region: rve; cl01316 882884002441 secreted effector protein PipB; Provisional; Region: PRK15197 882884002442 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 882884002443 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 882884002444 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 882884002445 DNA-binding site [nucleotide binding]; DNA binding site 882884002446 RNA-binding motif; other site 882884002447 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 882884002448 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...; Region: OM_channels; cl00284 882884002449 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...; Region: OM_channels; cl00284 882884002450 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...; Region: OM_channels; cl00284 882884002451 DNA cytosine methylase; Provisional; Region: PRK10458 882884002452 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 882884002453 cofactor binding site; other site 882884002454 DNA binding site [nucleotide binding] 882884002455 substrate interaction site [chemical binding]; other site 882884002456 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 882884002457 additional DNA contacts [nucleotide binding]; other site 882884002458 mismatch recognition site; other site 882884002459 active site 882884002460 zinc binding site [ion binding]; other site 882884002461 DNA intercalation site [nucleotide binding]; other site 882884002462 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 882884002463 EamA-like transporter family; Region: EamA; cl01037 882884002464 EamA-like transporter family; Region: EamA; cl01037 882884002465 Protein of unknown function (DUF808); Region: DUF808; cl01002 882884002466 Uncharacterized small protein (DUF2158); Region: DUF2158; cl02293 882884002467 putative diguanylate cyclase YedQ; Provisional; Region: PRK15426 882884002468 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882884002469 metal binding site [ion binding]; metal-binding site 882884002470 active site 882884002471 I-site; other site 882884002472 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK03669 882884002473 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 882884002474 active site 882884002475 motif I; other site 882884002476 motif II; other site 882884002477 Protein of unknown function (DUF2525); Region: DUF2525; pfam10733 882884002478 Dextransucrase DSRB; Region: DSRB; cl11680 882884002479 colanic acid capsular biosynthesis activation protein A; Provisional; Region: rcsA; PRK15411 882884002480 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...; Region: LuxR_C_like; cd06170 882884002481 DNA binding residues [nucleotide binding] 882884002482 dimerization interface [polypeptide binding]; other site 882884002483 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 882884002484 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 882884002485 FliP family; Region: FliP; cl00593 882884002486 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 882884002487 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 882884002488 flagellar motor switch protein; Validated; Region: fliN; PRK05698 882884002489 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 882884002490 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 882884002491 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 882884002492 Flagellar hook-length control protein FliK; Region: Flg_hook; cl14669 882884002493 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 882884002494 Flagellar FliJ protein; Region: FliJ; cl09161 882884002495 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 882884002496 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07960 882884002497 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 882884002498 Walker A motif/ATP binding site; other site 882884002499 Walker B motif; other site 882884002500 flagellar assembly protein H; Validated; Region: fliH; PRK05687 882884002501 Flagellar assembly protein FliH; Region: FliH; pfam02108 882884002502 flagellar motor switch protein FliG; Region: fliG; TIGR00207 882884002503 FliG C-terminal domain; Region: FliG_C; pfam01706 882884002504 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 882884002505 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 882884002506 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 882884002507 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 882884002508 YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system...; Region: YedF; cd03422 882884002509 CPxP motif; other site 882884002510 putative inner membrane protein; Provisional; Region: PRK11099 882884002511 YeeE/YedE family (DUF395); Region: DUF395; cl01018 882884002512 lipoprotein; Provisional; Region: PRK10397 882884002513 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 882884002514 Flagellar protein FliT; Region: FliT; cl05125 882884002515 Flagellar protein FliS; Region: FliS; cl00654 882884002516 flagellar capping protein; Reviewed; Region: fliD; PRK08032 882884002517 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 882884002518 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 882884002519 flagellin; Validated; Region: PRK06819 882884002520 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 882884002521 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 882884002522 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 882884002523 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 882884002524 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 882884002525 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...; Region: Sigma70_r4; cd06171 882884002526 DNA binding residues [nucleotide binding] 882884002527 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 882884002528 cystine transporter subunit; Provisional; Region: PRK11260 882884002529 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...; Region: PBPb; cd00134 882884002530 substrate binding pocket [chemical binding]; other site 882884002531 membrane-bound complex binding site; other site 882884002532 hinge residues; other site 882884002533 D-cysteine desulfhydrase; Validated; Region: PRK03910 882884002534 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 882884002535 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884002536 catalytic residue [active] 882884002537 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 882884002538 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...; Region: TM_PBP2; cd06261 882884002539 dimer interface [polypeptide binding]; other site 882884002540 conserved gate region; other site 882884002541 putative PBP binding loops; other site 882884002542 ABC-ATPase subunit interface; other site 882884002543 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 882884002544 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 882884002545 Walker A/P-loop; other site 882884002546 ATP binding site [chemical binding]; other site 882884002547 Q-loop/lid; other site 882884002548 ABC transporter signature motif; other site 882884002549 Walker B; other site 882884002550 D-loop; other site 882884002551 H-loop/switch region; other site 882884002552 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 882884002553 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 882884002554 Autoinducer binding domain; Region: Autoind_bind; pfam03472 882884002555 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...; Region: LuxR_C_like; cd06170 882884002556 DNA binding residues [nucleotide binding] 882884002557 dimerization interface [polypeptide binding]; other site 882884002558 Protein of unknown function (DUF2594); Region: DUF2594; cl11678 882884002559 response regulator; Provisional; Region: PRK09483 882884002560 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884002561 active site 882884002562 phosphorylation site [posttranslational modification] 882884002563 intermolecular recognition site; other site 882884002564 dimerization interface [polypeptide binding]; other site 882884002565 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...; Region: LuxR_C_like; cd06170 882884002566 DNA binding residues [nucleotide binding] 882884002567 dimerization interface [polypeptide binding]; other site 882884002568 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 882884002569 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 882884002570 UvrB/uvrC motif; Region: UVR; pfam02151 882884002571 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 882884002572 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 882884002573 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 882884002574 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 882884002575 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 882884002576 NlpC/P60 family; Region: NLPC_P60; cl11438 882884002577 glucose-6-phosphate 1-dehydrogenase; Region: PLN02640 882884002578 hypothetical protein; Provisional; Region: PRK10396 882884002579 Uncharacterised protein family (UPF0149); Region: UPF0149; cl01173 882884002580 SEC-C motif; Region: SEC-C; cl12132 882884002581 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 882884002582 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 882884002583 Protein of unknown function (DUF2492); Region: DUF2492; cl11278 882884002584 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 882884002585 Ferritin-like domain; Region: Ferritin; pfam00210 882884002586 ferroxidase diiron center [ion binding]; other site 882884002587 hypothetical protein; Provisional; Region: PRK09273 882884002588 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 882884002589 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 882884002590 Protein of unknown function (DUF2766); Region: DUF2766; pfam10964 882884002591 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 882884002592 Ferritin-like domain; Region: Ferritin; pfam00210 882884002593 ferroxidase diiron center [ion binding]; other site 882884002594 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 882884002595 conserved cys residue [active] 882884002596 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 882884002597 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; cl11391 882884002598 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 882884002599 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 882884002600 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...; Region: GT1_TPS; cd03788 882884002601 active site 882884002602 homotetramer interface [polypeptide binding]; other site 882884002603 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 882884002604 Ligand Binding Site [chemical binding]; other site 882884002605 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 882884002606 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 882884002607 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 882884002608 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 882884002609 flagellar motor protein MotB; Validated; Region: motB; PRK09041 882884002610 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 882884002611 ligand binding site [chemical binding]; other site 882884002612 chemotaxis protein CheA; Provisional; Region: PRK10547 882884002613 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 882884002614 putative binding surface; other site 882884002615 active site 882884002616 CheY binding; Region: CheY-binding; pfam09078 882884002617 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 882884002618 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884002619 ATP binding site [chemical binding]; other site 882884002620 Mg2+ binding site [ion binding]; other site 882884002621 G-X-G motif; other site 882884002622 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 882884002623 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 882884002624 putative CheA interaction surface; other site 882884002625 Spore Coat Protein U domain; Region: SCPU; cl02253 882884002626 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 882884002627 putative fimbrial chaperone protein; Provisional; Region: PRK09918 882884002628 pilin outer membrane usher protein SafC; Provisional; Region: PRK15223; cl14650 882884002629 Fimbrial Usher protein; Region: Usher; pfam00577 882884002630 Spore Coat Protein U domain; Region: SCPU; cl02253 882884002631 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 882884002632 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cd00181 882884002633 dimerization interface [polypeptide binding]; other site 882884002634 ligand (aspartate) binding pocket [chemical binding]; other site 882884002635 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 connected by an extended linker. The...; Region: HAMP; cd06225 882884002636 dimerization interface [polypeptide binding]; other site 882884002637 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 882884002638 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 882884002639 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 882884002640 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 882884002641 S-adenosylmethionine binding site [chemical binding]; other site 882884002642 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 882884002643 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884002644 active site 882884002645 phosphorylation site [posttranslational modification] 882884002646 intermolecular recognition site; other site 882884002647 dimerization interface [polypeptide binding]; other site 882884002648 CheB methylesterase; Region: CheB_methylest; pfam01339 882884002649 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884002650 Response regulator receiver domain; Region: Response_reg; pfam00072 882884002651 active site 882884002652 phosphorylation site [posttranslational modification] 882884002653 intermolecular recognition site; other site 882884002654 dimerization interface [polypeptide binding]; other site 882884002655 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 882884002656 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 882884002657 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 882884002658 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 882884002659 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 882884002660 Flagellar protein FlhE; Region: FlhE; pfam06366 882884002661 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 882884002662 putative transporter; Provisional; Region: PRK11462 882884002663 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 882884002664 penicillin-binding protein 2; Provisional; Region: PRK10795 882884002665 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 882884002666 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 882884002667 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 882884002668 arginyl-tRNA synthetase; Region: argS; TIGR00456 882884002669 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 882884002670 active site 882884002671 HIGH motif; other site 882884002672 KMSK motif region; other site 882884002673 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 882884002674 tRNA binding surface [nucleotide binding]; other site 882884002675 anticodon binding site; other site 882884002676 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_4; cd07268 882884002677 putative metal binding site [ion binding]; other site 882884002678 CutC family; Region: CutC; cl01218 882884002679 tRNA mo(5)U34 methyltransferase; Provisional; Region: PRK15068 882884002680 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 882884002681 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 882884002682 S-adenosylmethionine binding site [chemical binding]; other site 882884002683 MAPEG family; Region: MAPEG; cl09190 882884002684 Protein of unknown function DUF72; Region: DUF72; cl00777 882884002685 Isochorismatase family; Region: Isochorismatase; pfam00857 882884002686 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 882884002687 catalytic triad [active] 882884002688 conserved cis-peptide bond; other site 882884002689 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 882884002690 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 882884002691 dimer interface [polypeptide binding]; other site 882884002692 anticodon binding site; other site 882884002693 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 882884002694 homodimer interface [polypeptide binding]; other site 882884002695 motif 1; other site 882884002696 active site 882884002697 motif 2; other site 882884002698 GAD domain; Region: GAD; pfam02938 882884002699 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 882884002700 motif 3; other site 882884002701 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 882884002702 nudix motif; other site 882884002703 Domain of unknown function DUF28; Region: DUF28; cl00361 882884002704 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 882884002705 active site 882884002706 putative DNA-binding cleft [nucleotide binding]; other site 882884002707 dimer interface [polypeptide binding]; other site 882884002708 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 882884002709 RuvA N terminal domain; Region: RuvA_N; pfam01330 882884002710 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 882884002711 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 882884002712 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...; Region: AAA; cd00009 882884002713 Walker A motif; other site 882884002714 ATP binding site [chemical binding]; other site 882884002715 Walker B motif; other site 882884002716 arginine finger; other site 882884002717 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 882884002718 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...; Region: TM_ABC_iron-siderophores_like; cd06550 882884002719 ABC-ATPase subunit interface; other site 882884002720 dimer interface [polypeptide binding]; other site 882884002721 putative PBP binding regions; other site 882884002722 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 882884002723 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-...; Region: ABC_Metallic_Cations; cd03235 882884002724 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 882884002725 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 882884002726 metal binding site [ion binding]; metal-binding site 882884002727 putative peptidase; Provisional; Region: PRK11649 882884002728 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 882884002729 Peptidase family M23; Region: Peptidase_M23; pfam01551 882884002730 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 882884002731 putative acyl-acceptor binding pocket; other site 882884002732 pyruvate kinase; Provisional; Region: PRK05826 882884002733 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 882884002734 domain interfaces; other site 882884002735 active site 882884002736 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 882884002737 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose...; Region: SIS_RpiR; cd05013 882884002738 putative active site [active] 882884002739 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 882884002740 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 882884002741 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 882884002742 Dehydratase family; Region: ILVD_EDD; cl00340 882884002743 6-phosphogluconate dehydratase; Region: edd; TIGR01196 882884002744 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 882884002745 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 882884002746 active site 882884002747 intersubunit interface [polypeptide binding]; other site 882884002748 catalytic residue [active] 882884002749 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 882884002750 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 882884002751 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 882884002752 YebG protein; Region: YebG; cl01217 882884002753 hypothetical protein; Provisional; Region: PRK13680 882884002754 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 882884002755 putative metal binding site [ion binding]; other site 882884002756 protease 2; Provisional; Region: PRK10115 882884002757 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 882884002758 exodeoxyribonuclease X; Provisional; Region: PRK07983 882884002759 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 882884002760 active site 882884002761 substrate binding site [chemical binding]; other site 882884002762 catalytic site [active] 882884002763 Predicted amidohydrolase [General function prediction only]; Region: COG0388 882884002764 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 882884002765 DNA polymerase III, theta subunit; Region: DNA_pol3_theta; cl11635 882884002766 Copper resistance protein CopC; Region: CopC; cl01012 882884002767 Copper resistance protein D; Region: CopD; cl00563 882884002768 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 882884002769 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 882884002770 E3 ubiquitin-protein ligase SspH2; Provisional; Region: PRK15387 882884002771 pathogenicity island 2 effector protein SseI; Provisional; Region: PRK15372 882884002772 Type III secretion system leucine rich repeat protein; Region: TTSSLRR; pfam12468 882884002773 type III secretion protein SopE2; Provisional; Region: PRK15280 882884002774 Salmonella type III secretion SopE effector N-terminus; Region: SecIII_SopE_N; pfam05364 882884002775 SopE GEF domain; Region: SopE_GEF; pfam07487 882884002776 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 882884002777 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 882884002778 active site 882884002779 metal binding site [ion binding]; metal-binding site 882884002780 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 882884002781 Protein of unknown function (DUF1480); Region: DUF1480; pfam07351 882884002782 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 882884002783 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 882884002784 Uncharacterized conserved protein [Function unknown]; Region: COG3270 882884002785 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 882884002786 mce related protein; Region: MCE; cl03606 882884002787 mce related protein; Region: MCE; cl03606 882884002788 mce related protein; Region: MCE; cl03606 882884002789 mce related protein; Region: MCE; cl03606 882884002790 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 882884002791 mce related protein; Region: MCE; cl03606 882884002792 mce related protein; Region: MCE; cl03606 882884002793 integral membrane protein, PqiA family; Region: pqiA_fam; TIGR00155 882884002794 Paraquat-inducible protein A; Region: PqiA; pfam04403 882884002795 Paraquat-inducible protein A; Region: PqiA; pfam04403 882884002796 GAF domain; Region: GAF; cl00853 882884002797 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl00174 882884002798 carboxy-terminal protease; Provisional; Region: PRK11186 882884002799 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 882884002800 protein binding site [polypeptide binding]; other site 882884002801 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 882884002802 Catalytic dyad [active] 882884002803 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 882884002804 Peptidase family M48; Region: Peptidase_M48; cl12018 882884002805 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 882884002806 Major Facilitator Superfamily; Region: MFS_1; pfam07690 882884002807 putative substrate translocation pore; other site 882884002808 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 882884002809 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 882884002810 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884002811 Bacterial transcriptional regulator; Region: IclR; pfam01614 882884002812 PhoPQ regulatory protein; Provisional; Region: PRK10299 882884002813 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 882884002814 DNA-binding site [nucleotide binding]; DNA binding site 882884002815 RNA-binding motif; other site 882884002816 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 882884002817 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 882884002818 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 882884002819 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 882884002820 S-adenosylmethionine binding site [chemical binding]; other site 882884002821 hypothetical protein; Provisional; Region: PRK11469 882884002822 Domain of unknown function DUF; Region: DUF204; pfam02659 882884002823 Domain of unknown function DUF; Region: DUF204; pfam02659 882884002824 yybp-ykoy leader 882884002825 Protein of unknown function (DUF986); Region: DUF986; cl01983 882884002826 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 882884002827 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 882884002828 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 882884002829 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...; Region: PTS_IIA_man; cd00006 882884002830 active pocket/dimerization site; other site 882884002831 active site 882884002832 phosphorylation site [posttranslational modification] 882884002833 Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four...; Region: PTS_IIB_man; cd00001 882884002834 active site 882884002835 phosphorylation site [posttranslational modification] 882884002836 Integral membrane protein TerC family; Region: TerC; cl10468 882884002837 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 882884002838 Transporter associated domain; Region: CorC_HlyC; pfam03471 882884002839 phage resistance protein; Provisional; Region: PRK10551 882884002840 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 882884002841 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 882884002842 L-serine deaminase; Provisional; Region: PRK15023 882884002843 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 882884002844 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 882884002845 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 882884002846 putative active site [active] 882884002847 putative CoA binding site [chemical binding]; other site 882884002848 nudix motif; other site 882884002849 metal binding site [ion binding]; metal-binding site 882884002850 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 882884002851 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 882884002852 chorismate binding enzyme; Region: Chorismate_bind; cl10555 882884002853 Uncharacterised protein family (UPF0181); Region: UPF0181; cl11477 882884002854 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 882884002855 homotrimer interaction site [polypeptide binding]; other site 882884002856 putative active site [active] 882884002857 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 882884002858 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; cl14882 882884002859 DEAD_2; Region: DEAD_2; cl14887 882884002860 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl09250 882884002861 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 882884002862 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 882884002863 ribonuclease D; Provisional; Region: PRK10829 882884002864 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 882884002865 putative active site [active] 882884002866 catalytic site [active] 882884002867 putative substrate binding site [chemical binding]; other site 882884002868 HRDC domain; Region: HRDC; cl02578 882884002869 Septum formation topological specificity factor MinE; Region: MinE; cl00538 882884002870 cell division inhibitor MinD; Provisional; Region: PRK10818 882884002871 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a...; Region: MinD; cd02036 882884002872 Switch I; other site 882884002873 Switch II; other site 882884002874 septum formation inhibitor; Reviewed; Region: minC; PRK03511 882884002875 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 882884002876 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 882884002877 YcgL domain; Region: YcgL; cl01189 882884002878 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 882884002879 Flagellin N-methylase; Region: FliB; cl00497 882884002880 GnsA/GnsB family; Region: GnsAB; pfam08178 882884002881 Domain of unknown function (DUF1971); Region: DUF1971; cl01451 882884002882 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 882884002883 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 882884002884 transmembrane helices; other site 882884002885 fatty acid metabolism regulator; Provisional; Region: PRK04984 882884002886 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882884002887 DNA-binding site [nucleotide binding]; DNA binding site 882884002888 FCD domain; Region: FCD; cl11656 882884002889 SpoVR family protein; Provisional; Region: PRK11767 882884002890 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 882884002891 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 882884002892 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 882884002893 alanine racemase; Reviewed; Region: dadX; PRK03646 882884002894 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 882884002895 active site 882884002896 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 882884002897 substrate binding site [chemical binding]; other site 882884002898 catalytic residues [active] 882884002899 dimer interface [polypeptide binding]; other site 882884002900 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 882884002901 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 882884002902 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 882884002903 Transporter associated domain; Region: CorC_HlyC; pfam03471 882884002904 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 882884002905 dimer interface [polypeptide binding]; other site 882884002906 catalytic triad [active] 882884002907 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 882884002908 N-acetyl-D-glucosamine binding site [chemical binding]; other site 882884002909 catalytic residue [active] 882884002910 Flagellar regulator YcgR; Region: YcgR; pfam07317 882884002911 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 882884002912 PilZ domain; Region: PilZ; cl01260 882884002913 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 882884002914 trehalase; Provisional; Region: treA; PRK13271 882884002915 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 882884002916 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 882884002917 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 882884002918 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 882884002919 NAD(P) binding site [chemical binding]; other site 882884002920 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 882884002921 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 882884002922 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 882884002923 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 882884002924 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 882884002925 HyaE family; HyaE is also called HupG and HoxO. They are proteins serving a critical role in the assembly of multimeric [NiFe] hydrogenases, the enzymes that catalyze the oxidation of molecular hydrogen to enable microorganisms to utilize hydrogen as...; Region: HyaE; cd02965 882884002926 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase...; Region: H2MP_MemB-H2up; cd06062 882884002927 putative substrate-binding site; other site 882884002928 nickel binding site [ion binding]; other site 882884002929 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 882884002930 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 882884002931 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 882884002932 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 882884002933 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 882884002934 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 882884002935 Sulfatase; Region: Sulfatase; cl10460 882884002936 DNA-binding transcriptional regulator AgaR; Provisional; Region: PRK09802 882884002937 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884002938 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 882884002939 Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four...; Region: PTS_IIB_man; cd00001 882884002940 active site 882884002941 phosphorylation site [posttranslational modification] 882884002942 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 882884002943 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 882884002944 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...; Region: PTS_IIA_man; cd00006 882884002945 active pocket/dimerization site; other site 882884002946 active site 882884002947 phosphorylation site [posttranslational modification] 882884002948 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 882884002949 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 882884002950 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 882884002951 FeS/SAM binding site; other site 882884002952 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 882884002953 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 882884002954 Sulfatase; Region: Sulfatase; cl10460 882884002955 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; cl01752 882884002956 GTP-binding protein YchF; Reviewed; Region: PRK09601 882884002957 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 882884002958 G1 box; other site 882884002959 GTP/Mg2+ binding site [chemical binding]; other site 882884002960 Switch I region; other site 882884002961 G2 box; other site 882884002962 Switch II region; other site 882884002963 G3 box; other site 882884002964 G4 box; other site 882884002965 G5 box; other site 882884002966 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 882884002967 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 882884002968 putative active site [active] 882884002969 catalytic residue [active] 882884002970 Protein of unknown function (DUF2583); Region: DUF2583; cl11676 882884002971 putative transporter; Provisional; Region: PRK11660 882884002972 Sulfate transporter family; Region: Sulfate_transp; cl00967 882884002973 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 882884002974 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 882884002975 ribose-phosphate pyrophosphokinase; Region: ribP_PPkin; TIGR01251 882884002976 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 882884002977 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 882884002978 outer membrane lipoprotein LolB; Region: lolB; TIGR00548 882884002979 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 882884002980 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 882884002981 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 882884002982 tRNA; other site 882884002983 putative tRNA binding site [nucleotide binding]; other site 882884002984 putative NADP binding site [chemical binding]; other site 882884002985 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 882884002986 peptide chain release factor 1; Validated; Region: prfA; PRK00591 882884002987 RF-1 domain; Region: RF-1; cl02875 882884002988 RF-1 domain; Region: RF-1; cl02875 882884002989 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 882884002990 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 882884002991 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 882884002992 Uncharacterized conserved protein [Function unknown]; Region: COG2912 882884002993 hypothetical protein; Provisional; Region: PRK10941 882884002994 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 882884002995 NeuB family; Region: NeuB; cl00496 882884002996 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 882884002997 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 882884002998 ChaB; Region: ChaB; cl01887 882884002999 DsrE/DsrF-like family; Region: DrsE; cl00672 882884003000 putative invasin; Provisional; Region: PRK10177 882884003001 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 882884003002 transcriptional regulator NarL; Provisional; Region: PRK10651 882884003003 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884003004 active site 882884003005 phosphorylation site [posttranslational modification] 882884003006 intermolecular recognition site; other site 882884003007 dimerization interface [polypeptide binding]; other site 882884003008 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...; Region: LuxR_C_like; cd06170 882884003009 DNA binding residues [nucleotide binding] 882884003010 dimerization interface [polypeptide binding]; other site 882884003011 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 882884003012 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 connected by an extended linker. The...; Region: HAMP; cl01054 882884003013 Histidine kinase; Region: HisKA_3; pfam07730 882884003014 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884003015 ATP binding site [chemical binding]; other site 882884003016 Mg2+ binding site [ion binding]; other site 882884003017 G-X-G motif; other site 882884003018 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 882884003019 respiratory nitrate reductase, alpha subunit; Region: narG; TIGR01580 882884003020 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate...; Region: MopB_Nitrate-R-NarG-like; cd02750 882884003021 [4Fe-4S] binding site [ion binding]; other site 882884003022 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 882884003023 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 882884003024 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 882884003025 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 882884003026 molybdopterin cofactor binding site; other site 882884003027 nitrate reductase, beta subunit; Region: narH; TIGR01660 882884003028 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 882884003029 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 882884003030 RtT RNA; Rfam score 145.46; SARI_01194 882884003031 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 882884003032 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 882884003033 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 882884003034 putative active site [active] 882884003035 putative substrate binding site [chemical binding]; other site 882884003036 putative cosubstrate binding site; other site 882884003037 catalytic site [active] 882884003038 SEC-C motif; Region: SEC-C; cl12132 882884003039 hypothetical protein; Provisional; Region: PRK10279 882884003040 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 882884003041 active site 882884003042 nucleophile elbow; other site 882884003043 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884003044 active site 882884003045 response regulator of RpoS; Provisional; Region: PRK10693 882884003046 phosphorylation site [posttranslational modification] 882884003047 intermolecular recognition site; other site 882884003048 dimerization interface [polypeptide binding]; other site 882884003049 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 882884003050 active site 882884003051 tetramer interface [polypeptide binding]; other site 882884003052 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 882884003053 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 882884003054 Thymidine kinase; Region: TK; cl00631 882884003055 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 882884003056 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 882884003057 putative catalytic cysteine [active] 882884003058 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 882884003059 putative active site [active] 882884003060 metal binding site [ion binding]; metal-binding site 882884003061 MarC family integral membrane protein; Region: MarC; cl00919 882884003062 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 882884003063 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 882884003064 peptide binding site [polypeptide binding]; other site 882884003065 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 882884003066 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...; Region: TM_PBP2; cd06261 882884003067 dimer interface [polypeptide binding]; other site 882884003068 conserved gate region; other site 882884003069 putative PBP binding loops; other site 882884003070 ABC-ATPase subunit interface; other site 882884003071 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 882884003072 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 882884003073 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...; Region: TM_PBP2; cd06261 882884003074 dimer interface [polypeptide binding]; other site 882884003075 conserved gate region; other site 882884003076 ABC-ATPase subunit interface; other site 882884003077 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 882884003078 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 882884003079 Walker A/P-loop; other site 882884003080 ATP binding site [chemical binding]; other site 882884003081 Q-loop/lid; other site 882884003082 ABC transporter signature motif; other site 882884003083 Walker B; other site 882884003084 D-loop; other site 882884003085 H-loop/switch region; other site 882884003086 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 882884003087 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 882884003088 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 882884003089 Walker A/P-loop; other site 882884003090 ATP binding site [chemical binding]; other site 882884003091 Q-loop/lid; other site 882884003092 ABC transporter signature motif; other site 882884003093 Walker B; other site 882884003094 D-loop; other site 882884003095 H-loop/switch region; other site 882884003096 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 882884003097 Ion transport protein; Region: Ion_trans; pfam00520 882884003098 Ion channel; Region: Ion_trans_2; cl11596 882884003099 Double zinc ribbon; Region: DZR; pfam12773 882884003100 Protein of unknown function, DUF440; Region: DUF440; cl11472 882884003101 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 882884003102 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 882884003103 putative active site [active] 882884003104 catalytic site [active] 882884003105 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 882884003106 putative active site [active] 882884003107 catalytic site [active] 882884003108 YCII-related domain; Region: YCII; cl00999 882884003109 transport protein TonB; Provisional; Region: PRK10819 882884003110 Gram-negative bacterial tonB protein; Region: TonB; cl10048 882884003111 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...; Region: BFIT_BACH; cd03442 882884003112 Intracellular septation protein A; Region: IspA; cl01098 882884003113 Uncharacterised protein family (UPF0259); Region: UPF0259; cl11642 882884003114 Flagellin N-methylase; Region: FliB; cl00497 882884003115 Surface antigen; Region: Surface_Ag_2; cl01155 882884003116 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 882884003117 dimanganese center [ion binding]; other site 882884003118 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 882884003119 dinuclear metal binding motif [ion binding]; other site 882884003120 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 882884003121 dimerization interface [polypeptide binding]; other site 882884003122 metal binding site [ion binding]; metal-binding site 882884003123 General stress protein [General function prediction only]; Region: GsiB; COG3729 882884003124 tryptophan synthase; Region: PLN02591 882884003125 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...; Region: Tryptophan_synthase_alpha; cd04724 882884003126 substrate binding site [chemical binding]; other site 882884003127 active site 882884003128 catalytic residues [active] 882884003129 heterodimer interface [polypeptide binding]; other site 882884003130 tryptophan synthase, beta chain; Region: PLN02618 882884003131 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 882884003132 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884003133 catalytic residue [active] 882884003134 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 882884003135 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 882884003136 active site 882884003137 ribulose/triose binding site [chemical binding]; other site 882884003138 phosphate binding site [ion binding]; other site 882884003139 substrate (anthranilate) binding pocket [chemical binding]; other site 882884003140 product (indole) binding pocket [chemical binding]; other site 882884003141 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric...; Region: PRAI; cd00405 882884003142 active site 882884003143 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional; Region: PRK09522 882884003144 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 882884003145 glutamine binding [chemical binding]; other site 882884003146 catalytic triad [active] 882884003147 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 882884003148 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 882884003149 anthranilate synthase component I; Provisional; Region: PRK13564 882884003150 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 882884003151 chorismate binding enzyme; Region: Chorismate_bind; cl10555 882884003152 tryptophan operon leader 882884003153 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 882884003154 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 882884003155 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 882884003156 Integrase core domain; Region: rve; cl01316 882884003157 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; cl01116 882884003158 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 882884003159 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 882884003160 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 882884003161 RNA binding surface [nucleotide binding]; other site 882884003162 PseudoU_synth_RluB: Pseudouridine synthase, Escherichia coli RluB like. This group is comprised of bacterial and eukaryotic proteins similar to E. coli RluB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluB; cd02556 882884003163 probable active site [active] 882884003164 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 882884003165 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...; Region: CobA_CobO_BtuR; cd00561 882884003166 homodimer interface [polypeptide binding]; other site 882884003167 Walker A motif; other site 882884003168 ATP binding site [chemical binding]; other site 882884003169 hydroxycobalamin binding site [chemical binding]; other site 882884003170 Walker B motif; other site 882884003171 Escherichia coli K-12 YCIK-like, classical (c) SDRs; Region: Ycik_SDR_c; cd05340 882884003172 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 882884003173 NADP binding site [chemical binding]; other site 882884003174 homodimer interface [polypeptide binding]; other site 882884003175 active site 882884003176 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 882884003177 putative inner membrane peptidase; Provisional; Region: PRK11778 882884003178 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 882884003179 tandem repeat interface [polypeptide binding]; other site 882884003180 oligomer interface [polypeptide binding]; other site 882884003181 active site residues [active] 882884003182 Protein of unknown function (DUF2498); Region: DUF2498; cl11671 882884003183 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 882884003184 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...; Region: TOPRIM_TopoIA_TopoI; cd03363 882884003185 active site 882884003186 interdomain interaction site; other site 882884003187 putative metal-binding site [ion binding]; other site 882884003188 nucleotide binding site [chemical binding]; other site 882884003189 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...; Region: TOP1Ac; cd00186 882884003190 domain I; other site 882884003191 DNA binding groove [nucleotide binding] 882884003192 phosphate binding site [ion binding]; other site 882884003193 domain II; other site 882884003194 domain III; other site 882884003195 nucleotide binding site [chemical binding]; other site 882884003196 catalytic site [active] 882884003197 domain IV; other site 882884003198 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 882884003199 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 882884003200 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 882884003201 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 882884003202 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 882884003203 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884003204 The C-terminal substrate domain of LysR-type transcriptional regulator CysB contains type 2 periplasmic binding fold; Region: PBP2_CysB; cd08443 882884003205 substrate binding site [chemical binding]; other site 882884003206 putative dimerization interface [polypeptide binding]; other site 882884003207 aconitate hydratase; Validated; Region: PRK09277 882884003208 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 882884003209 substrate binding site [chemical binding]; other site 882884003210 ligand binding site [chemical binding]; other site 882884003211 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 882884003212 substrate binding site [chemical binding]; other site 882884003213 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 882884003214 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 882884003215 dimerization interface [polypeptide binding]; other site 882884003216 active site 882884003217 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 882884003218 active site 882884003219 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 882884003220 tetratricopeptide repeat protein; Provisional; Region: PRK11788 882884003221 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 882884003222 binding surface 882884003223 TPR motif; other site 882884003224 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 882884003225 active site 882884003226 dimer interface [polypeptide binding]; other site 882884003227 translation initiation factor Sui1; Validated; Region: PRK06824 882884003228 The SUI1/eIF1 (eukaryotic initiation factor 1) fold is found in eukaryotes, archaea, and some bacteria and is thought to play an important role in accurate initiator codon recognition during translation initiation. This fold, which includes two...; Region: SUI1_eIF1; cd00474 882884003229 Predicted RNA interaction site [nucleotide binding]; other site 882884003230 putative binding site; other site 882884003231 Mutations affecting start-site selection; other site 882884003232 lipoprotein; Provisional; Region: PRK10540 882884003233 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 882884003234 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884003235 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 882884003236 hypothetical protein; Provisional; Region: PRK13658 882884003237 RNase II stability modulator; Provisional; Region: PRK10060 882884003238 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 882884003239 RNase II stability modulator; Provisional; Region: PRK10060 882884003240 exoribonuclease II; Provisional; Region: PRK05054 882884003241 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 882884003242 RNB domain; Region: RNB; pfam00773 882884003243 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 882884003244 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 882884003245 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 882884003246 NAD binding site [chemical binding]; other site 882884003247 homotetramer interface [polypeptide binding]; other site 882884003248 homodimer interface [polypeptide binding]; other site 882884003249 substrate binding site [chemical binding]; other site 882884003250 active site 882884003251 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 882884003252 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 882884003253 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 882884003254 Walker A/P-loop; other site 882884003255 ATP binding site [chemical binding]; other site 882884003256 Q-loop/lid; other site 882884003257 ABC transporter signature motif; other site 882884003258 Walker B; other site 882884003259 D-loop; other site 882884003260 H-loop/switch region; other site 882884003261 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 882884003262 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 882884003263 Walker A/P-loop; other site 882884003264 ATP binding site [chemical binding]; other site 882884003265 Q-loop/lid; other site 882884003266 ABC transporter signature motif; other site 882884003267 Walker B; other site 882884003268 D-loop; other site 882884003269 H-loop/switch region; other site 882884003270 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 882884003271 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 882884003272 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 882884003273 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...; Region: TM_PBP2; cd06261 882884003274 dimer interface [polypeptide binding]; other site 882884003275 conserved gate region; other site 882884003276 putative PBP binding loops; other site 882884003277 ABC-ATPase subunit interface; other site 882884003278 putative transposase OrfB; Reviewed; Region: PHA02517 882884003279 putative transposase OrfB; Reviewed; Region: PHA02517 882884003280 Integrase core domain; Region: rve; cl01316 882884003281 Transposase; Region: DEDD_Tnp_IS110; pfam01548 882884003282 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; cl01116 882884003283 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; cl05448 882884003284 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 882884003285 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 882884003286 DNA-binding interface [nucleotide binding]; DNA binding site 882884003287 antimicrobial peptide ABC transporter permease SapB; Provisional; Region: PRK15110 882884003288 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...; Region: TM_PBP2; cd06261 882884003289 dimer interface [polypeptide binding]; other site 882884003290 conserved gate region; other site 882884003291 putative PBP binding loops; other site 882884003292 ABC-ATPase subunit interface; other site 882884003293 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 882884003294 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 882884003295 peptide binding site [polypeptide binding]; other site 882884003296 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 882884003297 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...; Region: AAA; cd00009 882884003298 Walker A motif; other site 882884003299 ATP binding site [chemical binding]; other site 882884003300 Walker B motif; other site 882884003301 arginine finger; other site 882884003302 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 882884003303 phage shock protein PspA; Provisional; Region: PRK10698 882884003304 phage shock protein A; Region: phageshock_pspA; TIGR02977 882884003305 Phage shock protein B; Region: PspB; cl05946 882884003306 PspC domain; Region: PspC; cl00864 882884003307 phage shock protein C; Region: phageshock_pspC; TIGR02978 882884003308 Phage shock protein PspD (Phageshock_PspD); Region: Phageshock_PspD; cl11512 882884003309 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 882884003310 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 882884003311 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 882884003312 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884003313 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...; Region: TM_PBP2; cd06261 882884003314 dimer interface [polypeptide binding]; other site 882884003315 conserved gate region; other site 882884003316 putative PBP binding loops; other site 882884003317 ABC-ATPase subunit interface; other site 882884003318 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 882884003319 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...; Region: TM_PBP2; cd06261 882884003320 dimer interface [polypeptide binding]; other site 882884003321 conserved gate region; other site 882884003322 putative PBP binding loops; other site 882884003323 ABC-ATPase subunit interface; other site 882884003324 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 882884003325 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 882884003326 putative NAD(P) binding site [chemical binding]; other site 882884003327 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 882884003328 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 D-arabino-6-...; Region: AP2Ec; cl12060 882884003329 Metal-binding active site; metal-binding site 882884003330 AP (apurinic/apyrimidinic) site pocket; other site 882884003331 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 882884003332 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884003333 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 882884003334 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 882884003335 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 882884003336 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 882884003337 beta-phosphoglucomutase; Region: bPGM; TIGR01990 882884003338 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 882884003339 motif II; other site 882884003340 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 882884003341 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 882884003342 Walker A/P-loop; other site 882884003343 ATP binding site [chemical binding]; other site 882884003344 Q-loop/lid; other site 882884003345 ABC transporter signature motif; other site 882884003346 Walker B; other site 882884003347 D-loop; other site 882884003348 H-loop/switch region; other site 882884003349 TOBE domain; Region: TOBE_2; cl01440 882884003350 Outer membrane protein G (OmpG); Region: Porin_OmpG; pfam09381 882884003351 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...; Region: OM_channels; cl00284 882884003352 Transcriptional regulators [Transcription]; Region: PurR; COG1609 882884003353 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 882884003354 DNA binding site [nucleotide binding] 882884003355 domain linker motif; other site 882884003356 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 882884003357 putative dimerization interface [polypeptide binding]; other site 882884003358 putative ligand binding site [chemical binding]; other site 882884003359 YcjX-like family, DUF463; Region: DUF463; cl01193 882884003360 hypothetical protein; Provisional; Region: PRK05415 882884003361 Domain of unknown function (DUF697); Region: DUF697; cl12064 882884003362 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 882884003363 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 882884003364 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...; Region: AAA; cd00009 882884003365 Walker A motif; other site 882884003366 ATP binding site [chemical binding]; other site 882884003367 Walker B motif; other site 882884003368 arginine finger; other site 882884003369 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 882884003370 dimer interface [polypeptide binding]; other site 882884003371 catalytic triad [active] 882884003372 peroxidatic and resolving cysteines [active] 882884003373 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 882884003374 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism...; Region: L-Ala-DL-Glu_epimerase; cd03319 882884003375 active site 882884003376 Peptidase M14-like domain of Escherichia coli Murein Peptide Amidase A (MpaA) and related proteins. MpaA is a member of the M14 family of metallocarboxypeptidases (MCPs), however it has an exceptional type of activity, it hydrolyzes the gamma-D-...; Region: M14_MpaA_like; cd06904 882884003377 putative active site [active] 882884003378 Zn-binding site [ion binding]; other site 882884003379 Cytolethal distending toxin A/C family; Region: CDtoxinA; pfam03498 882884003380 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 882884003381 putative catalytic site [active] 882884003382 putative phosphate binding site [ion binding]; other site 882884003383 putative metal binding site [ion binding]; other site 882884003384 Cytolethal distending toxin A/C family; Region: CDtoxinA; pfam03498 882884003385 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 882884003386 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 882884003387 peptide binding site [polypeptide binding]; other site 882884003388 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884003389 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 882884003390 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 882884003391 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882884003392 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 882884003393 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 882884003394 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 882884003395 B3/4 domain; Region: B3_4; cl11458 882884003396 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 882884003397 non-specific DNA binding site [nucleotide binding]; other site 882884003398 salt bridge; other site 882884003399 sequence-specific DNA binding site [nucleotide binding]; other site 882884003400 Cupin domain; Region: Cupin_2; cl09118 882884003401 Mechanosensitive ion channel; Region: MS_channel; pfam00924 882884003402 Protein of unknown function (DUF2534); Region: DUF2534; pfam10749 882884003403 universal stress protein UspE; Provisional; Region: PRK11175 882884003404 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 882884003405 Ligand Binding Site [chemical binding]; other site 882884003406 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 882884003407 Ligand Binding Site [chemical binding]; other site 882884003408 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 882884003409 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 882884003410 ligand binding site [chemical binding]; other site 882884003411 flexible hinge region; other site 882884003412 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 882884003413 putative switch regulator; other site 882884003414 non-specific DNA interactions [nucleotide binding]; other site 882884003415 DNA binding site [nucleotide binding] 882884003416 sequence specific DNA binding site [nucleotide binding]; other site 882884003417 putative cAMP binding site [chemical binding]; other site 882884003418 O-6-alkylguanine-DNA:cysteine-protein methyltransferase; Provisional; Region: PRK10286 882884003419 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 882884003420 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 882884003421 DNA binding site [nucleotide binding] 882884003422 active site 882884003423 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 882884003424 Smr domain; Region: Smr; cl02619 882884003425 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 connected by an extended linker. The...; Region: HAMP; cl01054 882884003426 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882884003427 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 882884003428 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 882884003429 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 882884003430 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 882884003431 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 882884003432 ATP binding site [chemical binding]; other site 882884003433 Mg++ binding site [ion binding]; other site 882884003434 motif III; other site 882884003435 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 882884003436 nucleotide binding region [chemical binding]; other site 882884003437 ATP-binding site [chemical binding]; other site 882884003438 DbpA RNA binding domain; Region: DbpA; pfam03880 882884003439 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 882884003440 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...; Region: Alpha_ANH_like_II; cd01993 882884003441 Ligand Binding Site [chemical binding]; other site 882884003442 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 882884003443 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 882884003444 Ligand Binding Site [chemical binding]; other site 882884003445 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 882884003446 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 882884003447 dimer interface [polypeptide binding]; other site 882884003448 PYR/PP interface [polypeptide binding]; other site 882884003449 TPP binding site [chemical binding]; other site 882884003450 substrate binding site [chemical binding]; other site 882884003451 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 882884003452 Domain of unknown function; Region: EKR; pfam10371 882884003453 4Fe-4S binding domain; Region: Fer4; cl02805 882884003454 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 subfamily also includes proteins characterized as...; Region: TPP_PFOR_PNO; cd03377 882884003455 TPP-binding site [chemical binding]; other site 882884003456 dimer interface [polypeptide binding]; other site 882884003457 Domain of unknown function (DUF333); Region: DUF333; pfam03891 882884003458 META domain; Region: META; cl01245 882884003459 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 882884003460 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884003461 Dicarboxylate transport; Region: DctA-YdbH; cl14674 882884003462 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 882884003463 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 882884003464 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 882884003465 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 882884003466 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 882884003467 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 882884003468 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 882884003469 ATP binding site [chemical binding]; other site 882884003470 putative Mg++ binding site [ion binding]; other site 882884003471 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 882884003472 nucleotide binding region [chemical binding]; other site 882884003473 ATP-binding site [chemical binding]; other site 882884003474 Helicase associated domain (HA2); Region: HA2; cl04503 882884003475 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 882884003476 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 882884003477 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 882884003478 putative active site [active] 882884003479 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 882884003480 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 882884003481 Sif protein; Region: Sif; cl11505 882884003482 Fatty acyltransferase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: fatty_acyltransferase_like; cd01846 882884003483 active site 882884003484 catalytic triad [active] 882884003485 oxyanion hole [active] 882884003486 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 882884003487 putative metal binding site [ion binding]; other site 882884003488 putative homotetramer interface [polypeptide binding]; other site 882884003489 putative homodimer interface [polypeptide binding]; other site 882884003490 putative homodimer-homodimer interface [polypeptide binding]; other site 882884003491 putative allosteric switch controlling residues; other site 882884003492 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 882884003493 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 882884003494 substrate binding site [chemical binding]; other site 882884003495 catalytic Zn binding site [ion binding]; other site 882884003496 NAD binding site [chemical binding]; other site 882884003497 structural Zn binding site [ion binding]; other site 882884003498 dimer interface [polypeptide binding]; other site 882884003499 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 882884003500 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 882884003501 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 connected by an extended linker. The...; Region: HAMP; cl01054 882884003502 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 882884003503 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 882884003504 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884003505 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884003506 dimerization interface [polypeptide binding]; other site 882884003507 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 882884003508 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 882884003509 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 882884003510 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 882884003511 substrate binding pocket [chemical binding]; other site 882884003512 catalytic triad [active] 882884003513 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl01208 882884003514 Protein of unknown function (DUF796); Region: DUF796; cl01226 882884003515 M28, and M42; Region: Zinc_peptidase_like; cl14876 882884003516 M28, and M42; Region: Zinc_peptidase_like; cl14876 882884003517 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 882884003518 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 882884003519 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 882884003520 gating phenylalanine in ion channel; other site 882884003521 tellurite resistance protein TehB; Provisional; Region: PRK12335 882884003522 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 882884003523 S-adenosylmethionine binding site [chemical binding]; other site 882884003524 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 882884003525 Sulfate transporter family; Region: Sulfate_transp; cl00967 882884003526 Cupin domain; Region: Cupin_2; cl09118 882884003527 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 882884003528 Peptidase family U32; Region: Peptidase_U32; cl03113 882884003529 Collagenase; Region: DUF3656; pfam12392 882884003530 Protein of unknown function (DUF2554); Region: DUF2554; pfam10829 882884003531 Sif protein; Region: Sif; cl11505 882884003532 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 882884003533 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 882884003534 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882884003535 DNA-binding site [nucleotide binding]; DNA binding site 882884003536 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 882884003537 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884003538 homodimer interface [polypeptide binding]; other site 882884003539 catalytic residue [active] 882884003540 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 882884003541 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 882884003542 tetrameric interface [polypeptide binding]; other site 882884003543 NAD binding site [chemical binding]; other site 882884003544 catalytic residues [active] 882884003545 substrate binding site [chemical binding]; other site 882884003546 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 882884003547 Uncharacterized protein conserved in bacteria, putative virulence factor [Function unknown]; Region: SrfC; COG4458 882884003548 Virulence factor SrfB; Region: SrfB; pfam07520 882884003549 Protein of unknown function (DUF2526); Region: DUF2526; pfam10735 882884003550 Protein of unknown function, DUF606; Region: DUF606; cl01273 882884003551 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 882884003552 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 882884003553 Prostaglandin dehydrogenases; Region: PGDH; cd05288 882884003554 NAD(P) binding site [chemical binding]; other site 882884003555 substrate binding site [chemical binding]; other site 882884003556 dimer interface [polypeptide binding]; other site 882884003557 colanic acid/biofilm transcriptional regulator; Provisional; Region: PRK11414 882884003558 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884003559 FCD domain; Region: FCD; cl11656 882884003560 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 882884003561 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 882884003562 N-terminal plug; other site 882884003563 ligand-binding site [chemical binding]; other site 882884003564 Uncharacterized conserved protein [Function unknown]; Region: COG3391 882884003565 TetR family transcriptional regulator; Provisional; Region: PRK14996 882884003566 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 882884003567 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 882884003568 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 882884003569 putative substrate translocation pore; other site 882884003570 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 882884003571 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface...; Region: gram_neg_porins; cd00342 882884003572 trimer interface [polypeptide binding]; other site 882884003573 eyelet of channel; other site 882884003574 aromatic amino acid exporter; Provisional; Region: PRK11689 882884003575 Fe-S containing; Region: FDH-beta; TIGR01582 882884003576 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 882884003577 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 882884003578 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 882884003579 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 882884003580 NAD binding site [chemical binding]; other site 882884003581 substrate binding site [chemical binding]; other site 882884003582 catalytic Zn binding site [ion binding]; other site 882884003583 tetramer interface [polypeptide binding]; other site 882884003584 structural Zn binding site [ion binding]; other site 882884003585 malate dehydrogenase; Provisional; Region: PRK13529 882884003586 Malic enzyme, N-terminal domain; Region: malic; pfam00390 882884003587 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 882884003588 NAD(P) binding site [chemical binding]; other site 882884003589 30S ribosomal protein subunit S22 family; Region: Ribosomal_S22; cl11579 882884003590 Putative biofilm-dependent modulation protein; Region: BDM; cl11581 882884003591 OsmC-like protein; Region: OsmC; cl00767 882884003592 acid-resistance protein; Provisional; Region: hdeB; PRK11566 882884003593 Protein of unknown function (DUF1264); Region: DUF1264; pfam06884 882884003594 Maltooligosyl trehalose synthase (MTSase) N-terminus domain. MTSase and maltooligosyl trehalose trehalohydrolase (MTHase) work together to produce trehalose. MTSase is responsible for converting the alpha-1,4-glucosidic linkage to an alpha,alpha-1,1-...; Region: MTHase_N_term; cd02853 882884003595 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 882884003596 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 882884003597 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 882884003598 malto-oligosyltrehalose synthase; Region: trehalose_TreY; TIGR02401 882884003599 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 882884003600 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 882884003601 Glycogen_debranching_enzyme N-terminal domain. Glycogen debranching enzymes have both 4-alpha-glucanotransferase and amylo-1,6-glucosidase activities. As a transferase it transfers a segment of a 1,4-alpha-D-glucan to a new 4-position in an acceptor...; Region: Glycogen_debranching_enzyme_N_term; cd02856 882884003602 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 882884003603 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 882884003604 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884003605 homodimer interface [polypeptide binding]; other site 882884003606 catalytic residue [active] 882884003607 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 882884003608 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 882884003609 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 882884003610 Transcriptional regulators [Transcription]; Region: PurR; COG1609 882884003611 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 882884003612 DNA binding site [nucleotide binding] 882884003613 domain linker motif; other site 882884003614 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 882884003615 dimerization interface (closed form) [polypeptide binding]; other site 882884003616 ligand binding site [chemical binding]; other site 882884003617 Fic/DOC family; Region: Fic; cl00960 882884003618 Phd_YefM; Region: PhdYeFM; cl09153 882884003619 HsdM N-terminal domain; Region: HsdM_N; pfam12161 882884003620 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 882884003621 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 882884003622 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 882884003623 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 882884003624 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 882884003625 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 882884003626 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 882884003627 ATP binding site [chemical binding]; other site 882884003628 putative Mg++ binding site [ion binding]; other site 882884003629 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 882884003630 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family...; Region: ABC_OpuCA_Osmoprotection; cd03295 882884003631 Walker A/P-loop; other site 882884003632 ATP binding site [chemical binding]; other site 882884003633 Q-loop/lid; other site 882884003634 ABC transporter signature motif; other site 882884003635 Walker B; other site 882884003636 D-loop; other site 882884003637 H-loop/switch region; other site 882884003638 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc; cd04582 882884003639 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...; Region: TM_PBP2; cl00427 882884003640 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884003641 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 882884003642 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...; Region: TM_PBP2; cd06261 882884003643 dimer interface [polypeptide binding]; other site 882884003644 conserved gate region; other site 882884003645 putative PBP binding loops; other site 882884003646 ABC-ATPase subunit interface; other site 882884003647 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 882884003648 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl04869 882884003649 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 882884003650 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 882884003651 molybdopterin cofactor binding site; other site 882884003652 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted N-...; Region: MopB_CT_DmsA-EC; cd02794 882884003653 putative molybdopterin cofactor binding site; other site 882884003654 DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 882884003655 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted N-...; Region: MopB_DmsA-EC; cd02770 882884003656 putative [Fe4-S4] binding site [ion binding]; other site 882884003657 putative molybdopterin cofactor binding site [chemical binding]; other site 882884003658 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted N-...; Region: MopB_CT_DmsA-EC; cd02794 882884003659 putative molybdopterin cofactor binding site; other site 882884003660 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 882884003661 Uncharacterised protein family (UPF0257); Region: UPF0257; cl14672 882884003662 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 882884003663 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 882884003664 Protein of unknown function (DUF1283); Region: DUF1283; cl11644 882884003665 Uncharacterised BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 882884003666 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 882884003667 The starvation sensing protein RpsA from E.coli and its homologs are lactonizing enzymes whose putative targets are homoserine lactone (HSL)-derivative. They are part of the mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of...; Region: rpsA; cd03322 882884003668 putative active site pocket [active] 882884003669 putative metal binding site [ion binding]; other site 882884003670 putative oxidoreductase; Provisional; Region: PRK10083 882884003671 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 882884003672 putative NAD(P) binding site [chemical binding]; other site 882884003673 catalytic Zn binding site [ion binding]; other site 882884003674 structural Zn binding site [ion binding]; other site 882884003675 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 882884003676 metabolite-proton symporter; Region: 2A0106; TIGR00883 882884003677 putative substrate translocation pore; other site 882884003678 D-mannonate oxidoreductase; Provisional; Region: PRK15037 882884003679 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 882884003680 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 882884003681 putative selenium-binding protein YdfZ; Region: YdfZ_fam; TIGR03318 882884003682 Transcriptional regulators [Transcription]; Region: GntR; COG1802 882884003683 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882884003684 DNA-binding site [nucleotide binding]; DNA binding site 882884003685 FCD domain; Region: FCD; cl11656 882884003686 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 882884003687 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 882884003688 putative NAD(P) binding site [chemical binding]; other site 882884003689 homodimer interface [polypeptide binding]; other site 882884003690 homotetramer interface [polypeptide binding]; other site 882884003691 active site 882884003692 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 882884003693 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 882884003694 active site 882884003695 Zn binding site [ion binding]; other site 882884003696 General stress protein [General function prediction only]; Region: GsiB; COG3729 882884003697 Competence-damaged protein; Region: CinA; cl00666 882884003698 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 882884003699 DNA-binding transcriptional activator MarA; Provisional; Region: PRK11511 882884003700 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882884003701 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884003702 Transcriptional regulators [Transcription]; Region: MarR; COG1846 882884003703 MarC family integral membrane protein; Region: MarC; cl00919 882884003704 putative arabinose transporter; Provisional; Region: PRK03545 882884003705 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 882884003706 putative substrate translocation pore; other site 882884003707 Transcriptional regulator [Transcription]; Region: LysR; COG0583 882884003708 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884003709 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 882884003710 putative dimerization interface [polypeptide binding]; other site 882884003711 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 882884003712 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 882884003713 NAD(P) binding site [chemical binding]; other site 882884003714 catalytic residues [active] 882884003715 Glutaminase; Region: Glutaminase; cl00907 882884003716 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...; Region: OM_channels; cl00284 882884003717 Hydrogenase expression/synthesis hypA family; Region: HypA; cl00418 882884003718 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 882884003719 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 882884003720 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 882884003721 Rubredoxin [Energy production and conversion]; Region: COG1773 882884003722 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...; Region: rubredoxin; cd00730 882884003723 iron binding site [ion binding]; other site 882884003724 HyaE family; HyaE is also called HupG and HoxO. They are proteins serving a critical role in the assembly of multimeric [NiFe] hydrogenases, the enzymes that catalyze the oxidation of molecular hydrogen to enable microorganisms to utilize hydrogen as...; Region: HyaE; cd02965 882884003725 HupF/HypC family; Region: HupF_HypC; cl00394 882884003726 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 882884003727 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase...; Region: H2MP_MemB-H2up; cd06062 882884003728 putative substrate-binding site; other site 882884003729 nickel binding site [ion binding]; other site 882884003730 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 882884003731 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 882884003732 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 882884003733 PhoPQ-activated pathogenicity-related protein; Region: PhoPQ_related; cl01750 882884003734 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl00174 882884003735 transcriptional regulator SpvR; Provisional; Region: PRK15243 882884003736 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884003737 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884003738 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases...; Region: lysozyme_like; cl00222 882884003739 Salmonella virulence plasmid 28.1kDa A protein; Region: VRP1; cl04143 882884003740 virulence protein SpvB; Provisional; Region: PRK15244 882884003741 VIP2; A family of actin-ADP-ribosylating toxin. A member of the Bacillus-prodiced vegetative insecticidal proteins (VIPs) possesses high specificity against the major insect pest, corn rootworms, and belongs to a classs of binary toxins and regulators...; Region: VIP2; cl00173 882884003742 active site 882884003743 conformational flexibility of ligand binding pocket; other site 882884003744 ADP-ribosylating toxin turn-turn motif; other site 882884003745 Salmonella virulence-associated 28kDa protein; Region: VRP3; cl04142 882884003746 Protein of unknown function DUF45; Region: DUF45; cl00636 882884003747 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 882884003748 Cl- selectivity filter; other site 882884003749 Cl- binding residues [ion binding]; other site 882884003750 pore gating glutamate residue; other site 882884003751 dimer interface [polypeptide binding]; other site 882884003752 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 882884003753 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 882884003754 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 882884003755 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 882884003756 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 882884003757 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 882884003758 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884003759 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 882884003760 dimerization interface [polypeptide binding]; other site 882884003761 substrate binding pocket [chemical binding]; other site 882884003762 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 882884003763 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 882884003764 putative substrate translocation pore; other site 882884003765 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 882884003766 active site 882884003767 substrate binding sites [chemical binding]; other site 882884003768 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 882884003769 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 882884003770 NAD(P) transhydrogenase beta subunit; Region: PNTB; cl00566 882884003771 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 882884003772 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; pfam05222 882884003773 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 882884003774 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 882884003775 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 882884003776 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 882884003777 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 882884003778 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 882884003779 GlpM protein; Region: GlpM; cl01212 882884003780 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 882884003781 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884003782 active site 882884003783 phosphorylation site [posttranslational modification] 882884003784 intermolecular recognition site; other site 882884003785 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...; Region: trans_reg_C; cd00383 882884003786 DNA binding site [nucleotide binding] 882884003787 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface...; Region: gram_neg_porins; cd00342 882884003788 trimer interface [polypeptide binding]; other site 882884003789 eyelet of channel; other site 882884003790 sensor protein RstB; Provisional; Region: PRK10604 882884003791 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 connected by an extended linker. The...; Region: HAMP; cl01054 882884003792 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 trans-...; Region: HisKA; cd00082 882884003793 dimer interface [polypeptide binding]; other site 882884003794 phosphorylation site [posttranslational modification] 882884003795 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884003796 ATP binding site [chemical binding]; other site 882884003797 Mg2+ binding site [ion binding]; other site 882884003798 G-X-G motif; other site 882884003799 DNA replication terminus site-binding protein (Ter protein); Region: Ter; cl11502 882884003800 fumarate hydratase; Reviewed; Region: fumC; PRK00485 882884003801 Class II fumarases; Region: Fumarase_classII; cd01362 882884003802 active site 882884003803 tetramer interface [polypeptide binding]; other site 882884003804 fumarate hydratase; Provisional; Region: PRK15389 882884003805 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 882884003806 Fumarase C-terminus; Region: Fumerase_C; cl00795 882884003807 mannose-6-phosphate isomerase; Provisional; Region: PRK15131; cl14659 882884003808 Phosphomannose isomerase type I; Region: PMI_typeI; pfam01238 882884003809 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 882884003810 hypothetical protein; Provisional; Region: PRK11367 882884003811 DNA-binding transcriptional repressor MalI; Provisional; Region: PRK10014 882884003812 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl02583 882884003813 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 882884003814 putative dimerization interface [polypeptide binding]; other site 882884003815 putative ligand binding site [chemical binding]; other site 882884003816 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 882884003817 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 882884003818 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIB_glc; cd00212 882884003819 active site turn [active] 882884003820 phosphorylation site [posttranslational modification] 882884003821 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 882884003822 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884003823 homodimer interface [polypeptide binding]; other site 882884003824 catalytic residue [active] 882884003825 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...; Region: metallo-dependent_hydrolases; cl00281 882884003826 active site 882884003827 putative oxidoreductase; Provisional; Region: PRK11579 882884003828 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884003829 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 882884003830 Haemolysin expression modulating protein; Region: HHA; cl11501 882884003831 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 882884003832 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 882884003833 electron transport complex protein RnfB; Provisional; Region: PRK05113 882884003834 Putative Fe-S cluster; Region: FeS; pfam04060 882884003835 4Fe-4S binding domain; Region: Fer4; cl02805 882884003836 electron transport complex protein RnfC; Provisional; Region: PRK05035 882884003837 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 882884003838 SLBB domain; Region: SLBB; pfam10531 882884003839 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 alpha-; Region: HCP_like; cl14655 882884003840 RnfE family; Region: NQR2_RnfD_RnfE; cl00779 882884003841 FMN-binding domain; Region: FMN_bind; cl01081 882884003842 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 882884003843 endonuclease III; Provisional; Region: PRK10702 882884003844 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 882884003845 minor groove reading motif; other site 882884003846 helix-hairpin-helix signature motif; other site 882884003847 substrate binding pocket [chemical binding]; other site 882884003848 active site 882884003849 FES domain; Region: FES; smart00525 882884003850 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 882884003851 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 882884003852 putative substrate translocation pore; other site 882884003853 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 882884003854 glutathionine S-transferase; Provisional; Region: PRK10542 882884003855 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens...; Region: GST_N_Beta; cd03057 882884003856 C-terminal domain interface [polypeptide binding]; other site 882884003857 GSH binding site (G-site) [chemical binding]; other site 882884003858 dimer interface [polypeptide binding]; other site 882884003859 GST_C family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens...; Region: GST_C_Beta; cd03188 882884003860 dimer interface [polypeptide binding]; other site 882884003861 N-terminal domain interface [polypeptide binding]; other site 882884003862 substrate binding pocket (H-site) [chemical binding]; other site 882884003863 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 882884003864 dimer interface [polypeptide binding]; other site 882884003865 pyridoxal binding site [chemical binding]; other site 882884003866 ATP binding site [chemical binding]; other site 882884003867 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 882884003868 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 882884003869 active site 882884003870 HIGH motif; other site 882884003871 dimer interface [polypeptide binding]; other site 882884003872 KMSKS motif; other site 882884003873 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 882884003874 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 882884003875 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 882884003876 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 882884003877 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 882884003878 Uncharacterised protein family (UPF0075); Region: UPF0075; cl04217 882884003879 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 882884003880 transcriptional regulator SlyA; Provisional; Region: PRK03573 882884003881 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884003882 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 882884003883 Fusaric acid resistance protein family; Region: FUSC; pfam04632 882884003884 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 882884003885 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 882884003886 E-class dimer interface [polypeptide binding]; other site 882884003887 P-class dimer interface [polypeptide binding]; other site 882884003888 active site 882884003889 Cu2+ binding site [ion binding]; other site 882884003890 Zn2+ binding site [ion binding]; other site 882884003891 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...; Region: Aldo_ket_red; cd06660 882884003892 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 882884003893 active site 882884003894 catalytic tetrad [active] 882884003895 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 882884003896 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 882884003897 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 882884003898 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 882884003899 FMN binding site [chemical binding]; other site 882884003900 active site 882884003901 substrate binding site [chemical binding]; other site 882884003902 catalytic residue [active] 882884003903 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 882884003904 dimer interface [polypeptide binding]; other site 882884003905 active site 882884003906 glutathione binding site [chemical binding]; other site 882884003907 metal binding site [ion binding]; metal-binding site 882884003908 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 882884003909 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 882884003910 dimer interface [polypeptide binding]; other site 882884003911 putative active site [active] 882884003912 putative substrate binding site [chemical binding]; other site 882884003913 catalytic site [active] 882884003914 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 882884003915 putative GSH binding site [chemical binding]; other site 882884003916 catalytic residues [active] 882884003917 NlpC/P60 family; Region: NLPC_P60; cl11438 882884003918 superoxide dismutase; Provisional; Region: PRK10543 882884003919 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 882884003920 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 882884003921 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 882884003922 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 882884003923 DNA binding site [nucleotide binding] 882884003924 domain linker motif; other site 882884003925 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 882884003926 dimerization interface [polypeptide binding]; other site 882884003927 ligand binding site [chemical binding]; other site 882884003928 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 882884003929 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884003930 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884003931 dimerization interface [polypeptide binding]; other site 882884003932 putative transporter; Provisional; Region: PRK11043 882884003933 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 882884003934 putative substrate translocation pore; other site 882884003935 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 882884003936 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 882884003937 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 882884003938 S-adenosylmethionine binding site [chemical binding]; other site 882884003939 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 882884003940 Lumazine binding domain; Region: Lum_binding; pfam00677 882884003941 Lumazine binding domain; Region: Lum_binding; pfam00677 882884003942 multidrug efflux protein; Reviewed; Region: PRK01766 882884003943 MatE; Region: MatE; pfam01554 882884003944 MatE; Region: MatE; pfam01554 882884003945 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 882884003946 Type III secretory pathway, component EscU [Intracellular trafficking and secretion]; Region: EscU; COG4792 882884003947 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 882884003948 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 882884003949 FliP family; Region: FliP; cl00593 882884003950 type III secretion system protein SsaQ; Validated; Region: PRK08035 882884003951 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 882884003952 type III secretion system protein SsaP; Provisional; Region: PRK15351 882884003953 type III secretion system protein SsaO; Provisional; Region: PRK15352 882884003954 type III secretion system ATPase SsaN; Validated; Region: PRK07594 882884003955 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884003956 Walker A motif; other site 882884003957 ATP binding site [chemical binding]; other site 882884003958 Walker B motif; other site 882884003959 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 882884003960 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 882884003961 type III secretion system protein SsaL; Provisional; Region: PRK15345 882884003962 HrpJ-like domain; Region: HrpJ; pfam07201 882884003963 type III secretion system protein SsaK; Provisional; Region: PRK15354 882884003964 type III secretion apparatus protein, HrpE/YscL family; Region: HrpE_YscL_not; TIGR02499 882884003965 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 882884003966 Type III secretion needle MxiH like; Region: MxiH; cl09641 882884003967 Protein of unknown function (DUF1039); Region: DUF1039; cl05668 882884003968 Type III secretion needle MxiH like; Region: MxiH; cl09641 882884003969 pathogenicity island 2 effector protein SseG; Provisional; Region: PRK15357 882884003970 pathogenicity island 2 effector protein SseF; Provisional; Region: PRK15358 882884003971 type III secretion system chaperone protein SscB; Provisional; Region: PRK15359 882884003972 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 882884003973 binding surface 882884003974 TPR motif; other site 882884003975 pathogenicity island 2 effector protein SseE; Provisional; Region: PRK15360 882884003976 pathogenicity island 2 effector protein SseD; Provisional; Region: PRK15361 882884003977 pathogenicity island 2 effector protein SseC; Provisional; Region: PRK15362 882884003978 Uncharacterized conserved protein [Function unknown]; Region: COG5613 882884003979 pathogenicity island 2 chaperone protein SscA; Provisional; Region: PRK15363 882884003980 EspA-like secreted protein; Region: EspA; cl04069 882884003981 type III secretion system chaperone SseA; Provisional; Region: PRK15365 882884003982 Protein of unknown function (DUF1895); Region: DUF1895; cl07553 882884003983 type III secretion system protein SsaD; Provisional; Region: PRK15367 882884003984 outer membrane secretin SsaC; Provisional; Region: PRK15346 882884003985 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 882884003986 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 882884003987 pathogenicity island chaperone protein SpiC; Provisional; Region: PRK15368 882884003988 two component system sensor kinase SsrA; Provisional; Region: PRK15347 882884003989 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 connected by an extended linker. The...; Region: HAMP; cl01054 882884003990 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 trans-...; Region: HisKA; cl00080 882884003991 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884003992 ATP binding site [chemical binding]; other site 882884003993 Mg2+ binding site [ion binding]; other site 882884003994 G-X-G motif; other site 882884003995 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884003996 active site 882884003997 phosphorylation site [posttranslational modification] 882884003998 intermolecular recognition site; other site 882884003999 dimerization interface [polypeptide binding]; other site 882884004000 two component system sensor kinase SsrB; Provisional; Region: PRK15369 882884004001 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884004002 active site 882884004003 phosphorylation site [posttranslational modification] 882884004004 intermolecular recognition site; other site 882884004005 dimerization interface [polypeptide binding]; other site 882884004006 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...; Region: LuxR_C_like; cd06170 882884004007 DNA binding residues [nucleotide binding] 882884004008 dimerization interface [polypeptide binding]; other site 882884004009 transcriptional regulator MirA; Provisional; Region: PRK15043 882884004010 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 882884004011 DNA binding residues [nucleotide binding] 882884004012 Protein of unknown function (DUF523); Region: DUF523; cl00733 882884004013 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 882884004014 Protein of unknown function (DUF2767); Region: DUF2767; cl08104 882884004015 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 882884004016 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884004017 active site 882884004018 phosphorylation site [posttranslational modification] 882884004019 intermolecular recognition site; other site 882884004020 dimerization interface [polypeptide binding]; other site 882884004021 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...; Region: LuxR_C_like; cd06170 882884004022 DNA binding residues [nucleotide binding] 882884004023 dimerization interface [polypeptide binding]; other site 882884004024 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884004025 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 trans-...; Region: HisKA; cd00082 882884004026 dimer interface [polypeptide binding]; other site 882884004027 phosphorylation site [posttranslational modification] 882884004028 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884004029 ATP binding site [chemical binding]; other site 882884004030 Mg2+ binding site [ion binding]; other site 882884004031 G-X-G motif; other site 882884004032 tetrathionate reductase subunit B; Provisional; Region: PRK14993 882884004033 4Fe-4S binding domain; Region: Fer4; cl02805 882884004034 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl01295 882884004035 tetrathionate reductase subunit A; Provisional; Region: PRK14991 882884004036 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 882884004037 putative [Fe4-S4] binding site [ion binding]; other site 882884004038 putative molybdopterin cofactor binding site [chemical binding]; other site 882884004039 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 882884004040 putative molybdopterin cofactor binding site; other site 882884004041 pyruvate kinase; Provisional; Region: PRK09206 882884004042 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; cd00288 882884004043 domain interfaces; other site 882884004044 active site 882884004045 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 882884004046 L,D-transpeptidase; Provisional; Region: PRK10190 882884004047 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 882884004048 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 882884004049 Fe-S metabolism associated domain; Region: SufE; cl00951 882884004050 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 882884004051 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 882884004052 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 882884004053 catalytic residue [active] 882884004054 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 882884004055 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 882884004056 cysteine desulfurase ATPase component; Reviewed; Region: sufC; PRK09580 882884004057 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 882884004058 Walker A/P-loop; other site 882884004059 ATP binding site [chemical binding]; other site 882884004060 Q-loop/lid; other site 882884004061 ABC transporter signature motif; other site 882884004062 Walker B; other site 882884004063 D-loop; other site 882884004064 H-loop/switch region; other site 882884004065 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 882884004066 putative ABC transporter; Region: ycf24; CHL00085 882884004067 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 882884004068 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 882884004069 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 882884004070 CoenzymeA binding site [chemical binding]; other site 882884004071 subunit interaction site [polypeptide binding]; other site 882884004072 PHB binding site; other site 882884004073 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 882884004074 FAD binding domain; Region: FAD_binding_4; pfam01565 882884004075 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 882884004076 Domain of unknown function DUF20; Region: UPF0118; cl00465 882884004077 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 882884004078 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 882884004079 3-dehydroquinate dehydratase, type I; Region: aroD; TIGR01093 882884004080 active site 882884004081 catalytic residue [active] 882884004082 dimer interface [polypeptide binding]; other site 882884004083 phosphoenolpyruvate synthase; Validated; Region: PRK06464 882884004084 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 882884004085 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 882884004086 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 882884004087 Domain of unknown function (DUF299); Region: DUF299; cl00780 882884004088 NeuB family; Region: NeuB; cl00496 882884004089 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 882884004090 Hemin uptake protein hemP; Region: hemP; cl10043 882884004091 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 882884004092 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 882884004093 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 882884004094 NlpC/P60 family; Region: NLPC_P60; cl11438 882884004095 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 882884004096 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 882884004097 Walker A/P-loop; other site 882884004098 ATP binding site [chemical binding]; other site 882884004099 Q-loop/lid; other site 882884004100 ABC transporter signature motif; other site 882884004101 Walker B; other site 882884004102 D-loop; other site 882884004103 H-loop/switch region; other site 882884004104 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...; Region: GSH_Peroxidase; cd00340 882884004105 catalytic residues [active] 882884004106 dimer interface [polypeptide binding]; other site 882884004107 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...; Region: TM_ABC_iron-siderophores_like; cd06550 882884004108 ABC-ATPase subunit interface; other site 882884004109 dimer interface [polypeptide binding]; other site 882884004110 putative PBP binding regions; other site 882884004111 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 higher-...; Region: HU_IHF; cd00591 882884004112 IHF dimer interface [polypeptide binding]; other site 882884004113 IHF - DNA interface [nucleotide binding]; other site 882884004114 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 882884004115 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 882884004116 putative tRNA-binding site [nucleotide binding]; other site 882884004117 B3/4 domain; Region: B3_4; cl11458 882884004118 tRNA synthetase B5 domain; Region: B5; cl08394 882884004119 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 882884004120 dimer interface [polypeptide binding]; other site 882884004121 motif 1; other site 882884004122 motif 3; other site 882884004123 motif 2; other site 882884004124 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 882884004125 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 882884004126 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 882884004127 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 882884004128 dimer interface [polypeptide binding]; other site 882884004129 motif 1; other site 882884004130 active site 882884004131 motif 2; other site 882884004132 motif 3; other site 882884004133 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 882884004134 23S rRNA binding site [nucleotide binding]; other site 882884004135 L21 binding site [polypeptide binding]; other site 882884004136 L13 binding site [polypeptide binding]; other site 882884004137 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 882884004138 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 882884004139 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 882884004140 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 882884004141 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...; Region: TGS_ThrRS_N; cd01667 882884004142 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 882884004143 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 882884004144 active site 882884004145 dimer interface [polypeptide binding]; other site 882884004146 motif 1; other site 882884004147 motif 2; other site 882884004148 motif 3; other site 882884004149 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 882884004150 anticodon binding site; other site 882884004151 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 882884004152 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 882884004153 active site 882884004154 DNA binding site [nucleotide binding] 882884004155 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 (...; Region: S24_LexA-like; cd06529 882884004156 Catalytic site [active] 882884004157 Phage antitermination protein Q; Region: Phage_antiter_Q; pfam06323 882884004158 lipopolysaccharide 1,2-N-acetylglucosaminetransferase; Provisional; Region: PRK15484 882884004159 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 882884004160 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 882884004161 active site 882884004162 substrate binding site [chemical binding]; other site 882884004163 Mg2+ binding site [ion binding]; other site 882884004164 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 882884004165 Protein of unknown function, DUF481; Region: DUF481; cl01213 882884004166 6-phosphofructokinase 2; Provisional; Region: PRK10294 882884004167 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 882884004168 putative substrate binding site [chemical binding]; other site 882884004169 putative ATP binding site [chemical binding]; other site 882884004170 Protein of unknown function (DUF2622); Region: DUF2622; pfam11080 882884004171 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 882884004172 active site 882884004173 ATP binding site [chemical binding]; other site 882884004174 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 882884004175 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 882884004176 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 882884004177 motif II; other site 882884004178 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 882884004179 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 882884004180 Cell division activator CedA; Region: CedA; cl11674 882884004181 hydroperoxidase II; Provisional; Region: katE; PRK11249 882884004182 YdjC-like protein; Region: YdjC; cl01344 882884004183 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 882884004184 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 882884004185 NAD binding site [chemical binding]; other site 882884004186 sugar binding site [chemical binding]; other site 882884004187 divalent metal binding site [ion binding]; other site 882884004188 tetramer (dimer of dimers) interface [polypeptide binding]; other site 882884004189 dimer interface [polypeptide binding]; other site 882884004190 DNA-binding transcriptional regulator ChbR; Provisional; Region: PRK10296 882884004191 Cupin domain; Region: Cupin_2; cl09118 882884004192 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882884004193 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 882884004194 methionine cluster; other site 882884004195 active site 882884004196 phosphorylation site [posttranslational modification] 882884004197 metal binding site [ion binding]; metal-binding site 882884004198 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 882884004199 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N,N-...; Region: PTS_IIB_chitobiose_lichenan; cd05564 882884004200 active site 882884004201 P-loop; other site 882884004202 phosphorylation site [posttranslational modification] 882884004203 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 882884004204 NAD+ synthetase; Region: nadE; TIGR00552 882884004205 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...; Region: NAD_synthase; cd00553 882884004206 homodimer interface [polypeptide binding]; other site 882884004207 NAD binding pocket [chemical binding]; other site 882884004208 ATP binding pocket [chemical binding]; other site 882884004209 Mg binding site [ion binding]; other site 882884004210 active-site loop [active] 882884004211 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 882884004212 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 882884004213 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 882884004214 dimer interface [polypeptide binding]; other site 882884004215 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 882884004216 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 882884004217 active site 882884004218 Zn-binding site [ion binding]; other site 882884004219 Succinylarginine dihydrolase; Region: AstB; cl01511 882884004220 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 882884004221 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 882884004222 NAD(P) binding site [chemical binding]; other site 882884004223 catalytic residues [active] 882884004224 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 882884004225 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 882884004226 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional; Region: PRK12381 882884004227 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 882884004228 inhibitor-cofactor binding pocket; inhibition site 882884004229 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884004230 catalytic residue [active] 882884004231 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 882884004232 putative phosphate binding site [ion binding]; other site 882884004233 putative catalytic site [active] 882884004234 active site 882884004235 metal binding site A [ion binding]; metal-binding site 882884004236 DNA binding site [nucleotide binding] 882884004237 putative AP binding site [nucleotide binding]; other site 882884004238 putative metal binding site B [ion binding]; other site 882884004239 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 882884004240 active site 882884004241 8-oxo-dGMP binding site [chemical binding]; other site 882884004242 nudix motif; other site 882884004243 metal binding site [ion binding]; metal-binding site 882884004244 Protein of unknown function (DUF1496); Region: DUF1496; pfam07383 882884004245 glutamate dehydrogenase; Provisional; Region: PRK09414 882884004246 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 882884004247 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 882884004248 NAD(P) binding site [chemical binding]; other site 882884004249 DNA topoisomerase III; Provisional; Region: PRK07726 882884004250 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by:...; Region: TOPRIM_TopoIA_TopoIII; cd03362 882884004251 active site 882884004252 putative interdomain interaction site [polypeptide binding]; other site 882884004253 putative metal-binding site [ion binding]; other site 882884004254 putative nucleotide binding site [chemical binding]; other site 882884004255 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...; Region: TOP1Ac; cd00186 882884004256 domain I; other site 882884004257 DNA binding groove [nucleotide binding] 882884004258 phosphate binding site [ion binding]; other site 882884004259 domain II; other site 882884004260 domain III; other site 882884004261 nucleotide binding site [chemical binding]; other site 882884004262 catalytic site [active] 882884004263 domain IV; other site 882884004264 selenophosphate synthetase; Provisional; Region: PRK00943 882884004265 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 882884004266 dimerization interface [polypeptide binding]; other site 882884004267 putative ATP binding site [chemical binding]; other site 882884004268 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a beta-...; Region: Arsenite_oxidase; cd02135 882884004269 putative FMN binding site [chemical binding]; other site 882884004270 protease 4; Provisional; Region: PRK10949 882884004271 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 882884004272 tandem repeat interface [polypeptide binding]; other site 882884004273 oligomer interface [polypeptide binding]; other site 882884004274 active site residues [active] 882884004275 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_1; cd07019 882884004276 tandem repeat interface [polypeptide binding]; other site 882884004277 oligomer interface [polypeptide binding]; other site 882884004278 active site residues [active] 882884004279 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cd00411 882884004280 active site/substrate binding site [active] 882884004281 tetramer interface [polypeptide binding]; other site 882884004282 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 882884004283 catalytic triad [active] 882884004284 metal binding site [ion binding]; metal-binding site 882884004285 conserved cis-peptide bond; other site 882884004286 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 882884004287 SelR domain; Region: SelR; cl00369 882884004288 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884004289 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 882884004290 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 882884004291 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 882884004292 active site 882884004293 phosphate binding residues; other site 882884004294 catalytic residues [active] 882884004295 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...; Region: Aldo_ket_red; cd06660 882884004296 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 882884004297 active site 882884004298 catalytic tetrad [active] 882884004299 MltA-interacting protein MipA; Region: MipA; cl01504 882884004300 PrkA family serine protein kinase; Provisional; Region: PRK15455 882884004301 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884004302 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 882884004303 Protein of unknown function (DUF444); Region: DUF444; pfam04285 882884004304 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 882884004305 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882884004306 metal binding site [ion binding]; metal-binding site 882884004307 active site 882884004308 I-site; other site 882884004309 YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting...; Region: YeaK; cd04336 882884004310 putative deacylase active site [active] 882884004311 Protein of unknown function (DUF441); Region: DUF441; cl01041 882884004312 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 882884004313 cyanate transporter; Region: CynX; TIGR00896 882884004314 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 882884004315 putative substrate translocation pore; other site 882884004316 Protein of unknown function, DUF488; Region: DUF488; cl01246 882884004317 Domain of unknown function (DUF333); Region: DUF333; pfam03891 882884004318 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 882884004319 Domain of unknown function (DUF1971); Region: DUF1971; cl01451 882884004320 LysE type translocator; Region: LysE; cl00565 882884004321 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 882884004322 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...; Region: PBPb; cd00134 882884004323 substrate binding pocket [chemical binding]; other site 882884004324 membrane-bound complex binding site; other site 882884004325 hinge residues; other site 882884004326 Chorismate mutase type II; Region: CM_2; cl00693 882884004327 Biofilm development protein YmgB/AriR; Region: YmgB; pfam10798 882884004328 transcriptional regulator MirA; Provisional; Region: PRK15043 882884004329 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 882884004330 DNA binding residues [nucleotide binding] 882884004331 dimer interface [polypeptide binding]; other site 882884004332 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...; Region: LuxR_C_like; cd06170 882884004333 DNA binding residues [nucleotide binding] 882884004334 Nucleotidyltransferase (NT) domain of DNA polymerase beta and similar proteins; Region: NT_Pol-beta-like; cl11966 882884004335 YodA lipocalin-like domain; Region: YodA; cl01365 882884004336 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 882884004337 dimerization interface [polypeptide binding]; other site 882884004338 Mechanosensitive ion channel; Region: MS_channel; pfam00924 882884004339 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 882884004340 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 882884004341 Walker A/P-loop; other site 882884004342 ATP binding site [chemical binding]; other site 882884004343 Q-loop/lid; other site 882884004344 ABC transporter signature motif; other site 882884004345 Walker B; other site 882884004346 D-loop; other site 882884004347 H-loop/switch region; other site 882884004348 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 882884004349 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 882884004350 Walker A/P-loop; other site 882884004351 ATP binding site [chemical binding]; other site 882884004352 Q-loop/lid; other site 882884004353 ABC transporter signature motif; other site 882884004354 Walker B; other site 882884004355 D-loop; other site 882884004356 H-loop/switch region; other site 882884004357 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...; Region: TM_PBP2; cd06261 882884004358 dimer interface [polypeptide binding]; other site 882884004359 conserved gate region; other site 882884004360 putative PBP binding loops; other site 882884004361 ABC-ATPase subunit interface; other site 882884004362 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 882884004363 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...; Region: TM_PBP2; cl00427 882884004364 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 882884004365 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 882884004366 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl01922 882884004367 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 882884004368 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein...; Region: ACD_IbpA-B_like; cd06470 882884004369 putative dimer interface [polypeptide binding]; other site 882884004370 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 882884004371 Surface antigen; Region: Surface_Ag_2; cl01155 882884004372 Restriction endonuclease NotI; Region: NotI; pfam12183 882884004373 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly...; Region: RICIN; cd00161 882884004374 putative sugar binding sites [chemical binding]; other site 882884004375 Q-X-W motif; other site 882884004376 DinI-like family; Region: DinI; cl11630 882884004377 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 882884004378 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases...; Region: PL1_Passenger_AT; cd01343 882884004379 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 882884004380 Autotransporter beta-domain; Region: Autotransporter; cl02365 882884004381 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 882884004382 Bor protein; Region: Lambda_Bor; pfam06291 882884004383 Omptin family; Region: Omptin; cl01886 882884004384 SET domain; Region: SET; cl02566 882884004385 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 882884004386 dimer interface [polypeptide binding]; other site 882884004387 catalytic triad [active] 882884004388 putative transposase OrfB; Reviewed; Region: PHA02517 882884004389 Integrase core domain; Region: rve; cl01316 882884004390 PipA protein; Region: PipA; pfam07108 882884004391 isocitrate dehydrogenase; Validated; Region: PRK07362 882884004392 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 882884004393 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 882884004394 PseudoU_synth_RluE: Pseudouridine synthase, Escherichia coli RluE. This group is comprised of bacterial proteins similar to E. coli RluE. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-...; Region: PseudoU_synth_RluE; cd02566 882884004395 probable active site [active] 882884004396 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 882884004397 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X...; Region: Nudix_Hydrolase_2; cd03675 882884004398 nudix motif; other site 882884004399 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 882884004400 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 882884004401 Protein of unknown function (DUF489); Region: DUF489; cl01097 882884004402 adenylosuccinate lyase; Provisional; Region: PRK09285 882884004403 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 882884004404 tetramer interface [polypeptide binding]; other site 882884004405 active site 882884004406 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 882884004407 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884004408 active site 882884004409 phosphorylation site [posttranslational modification] 882884004410 intermolecular recognition site; other site 882884004411 dimerization interface [polypeptide binding]; other site 882884004412 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...; Region: trans_reg_C; cd00383 882884004413 DNA binding site [nucleotide binding] 882884004414 sensor protein PhoQ; Provisional; Region: PRK10815 882884004415 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 882884004416 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 trans-...; Region: HisKA; cl00080 882884004417 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884004418 ATP binding site [chemical binding]; other site 882884004419 Mg2+ binding site [ion binding]; other site 882884004420 G-X-G motif; other site 882884004421 Uncharacterized conserved protein [Function unknown]; Region: COG2850 882884004422 peptidase T; Region: peptidase-T; TIGR01882 882884004423 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 882884004424 metal binding site [ion binding]; metal-binding site 882884004425 dimer interface [polypeptide binding]; other site 882884004426 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 882884004427 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884004428 Walker A/P-loop; other site 882884004429 ATP binding site [chemical binding]; other site 882884004430 Q-loop/lid; other site 882884004431 ABC transporter signature motif; other site 882884004432 Walker B; other site 882884004433 D-loop; other site 882884004434 H-loop/switch region; other site 882884004435 TOBE domain; Region: TOBE_2; cl01440 882884004436 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 882884004437 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...; Region: TM_PBP2; cd06261 882884004438 dimer interface [polypeptide binding]; other site 882884004439 conserved gate region; other site 882884004440 putative PBP binding loops; other site 882884004441 ABC-ATPase subunit interface; other site 882884004442 Sif protein; Region: Sif; cl11505 882884004443 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...; Region: TM_PBP2; cd06261 882884004444 dimer interface [polypeptide binding]; other site 882884004445 conserved gate region; other site 882884004446 putative PBP binding loops; other site 882884004447 ABC-ATPase subunit interface; other site 882884004448 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884004449 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 882884004450 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes...; Region: SIRT5_Af1_CobB; cd01412 882884004451 NAD+ binding site [chemical binding]; other site 882884004452 substrate binding site [chemical binding]; other site 882884004453 Zn binding site [ion binding]; other site 882884004454 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 882884004455 fructokinase; Reviewed; Region: PRK09557 882884004456 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 882884004457 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 882884004458 FtsX-like permease family; Region: FtsX; pfam02687 882884004459 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 882884004460 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 882884004461 Walker A/P-loop; other site 882884004462 ATP binding site [chemical binding]; other site 882884004463 Q-loop/lid; other site 882884004464 ABC transporter signature motif; other site 882884004465 Walker B; other site 882884004466 D-loop; other site 882884004467 H-loop/switch region; other site 882884004468 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 882884004469 FtsX-like permease family; Region: FtsX; pfam02687 882884004470 transcription-repair coupling factor; Provisional; Region: PRK10689 882884004471 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 882884004472 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 882884004473 ATP binding site [chemical binding]; other site 882884004474 putative Mg++ binding site [ion binding]; other site 882884004475 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 882884004476 nucleotide binding region [chemical binding]; other site 882884004477 ATP-binding site [chemical binding]; other site 882884004478 TRCF domain; Region: TRCF; pfam03461 882884004479 L,D-transpeptidase; Provisional; Region: PRK10190 882884004480 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 882884004481 putative peptidoglycan binding site; other site 882884004482 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 882884004483 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 882884004484 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 882884004485 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 882884004486 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 882884004487 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 882884004488 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 882884004489 Uncharacterised protein family (UPF0227); Region: UPF0227; cl14886 882884004490 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 882884004491 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 882884004492 substrate binding site [chemical binding]; other site 882884004493 Curli production assembly/transport component CsgG; Region: CsgG; cl00639 882884004494 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 882884004495 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 882884004496 putative dimer interface [polypeptide binding]; other site 882884004497 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 882884004498 nucleotide binding site/active site [active] 882884004499 HIT family signature motif; other site 882884004500 catalytic residue [active] 882884004501 ferric-rhodotorulic acid outer membrane transporter; Provisional; Region: PRK10003 882884004502 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 882884004503 N-terminal plug; other site 882884004504 ligand-binding site [chemical binding]; other site 882884004505 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 882884004506 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 882884004507 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIB_glc; cd00212 882884004508 active site turn [active] 882884004509 phosphorylation site [posttranslational modification] 882884004510 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 882884004511 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 882884004512 active site 882884004513 DNA polymerase III subunit delta'; Validated; Region: PRK07993 882884004514 C terminal; Region: DNApol3-delta_C; pfam09115 882884004515 thymidylate kinase; Validated; Region: tmk; PRK00698 882884004516 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...; Region: TMPK; cd01672 882884004517 TMP-binding site; other site 882884004518 ATP-binding site [chemical binding]; other site 882884004519 YceG-like family; Region: YceG; pfam02618 882884004520 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 882884004521 dimerization interface [polypeptide binding]; other site 882884004522 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 882884004523 Aminotransferase class IV; Region: Aminotran_4; pfam01063 882884004524 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884004525 catalytic residue [active] 882884004526 Fimbrial protein; Region: Fimbrial; cl01416 882884004527 fimbrial assembly chaperone SthB; Provisional; Region: PRK15295 882884004528 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 882884004529 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 882884004530 Fimbrial Usher protein; Region: Usher; pfam00577 882884004531 pilin outer membrane usher protein SafC; Provisional; Region: PRK15223; cl14650 882884004532 Fimbrial protein; Region: Fimbrial; cl01416 882884004533 Fimbrial protein; Region: Fimbrial; cl01416 882884004534 Fimbrial protein; Region: Fimbrial; cl01416 882884004535 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 882884004536 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 882884004537 dimer interface [polypeptide binding]; other site 882884004538 active site 882884004539 Phosphopantetheine attachment site; Region: PP-binding; cl09936 882884004540 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 882884004541 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 882884004542 NAD(P) binding site [chemical binding]; other site 882884004543 homotetramer interface [polypeptide binding]; other site 882884004544 homodimer interface [polypeptide binding]; other site 882884004545 active site 882884004546 Acyl transferase domain; Region: Acyl_transf_1; cl08282 882884004547 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 882884004548 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 882884004549 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 882884004550 dimer interface [polypeptide binding]; other site 882884004551 active site 882884004552 CoA binding pocket [chemical binding]; other site 882884004553 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 882884004554 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 882884004555 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 882884004556 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 882884004557 active site 882884004558 dimer interface [polypeptide binding]; other site 882884004559 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 882884004560 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 882884004561 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 882884004562 active site 882884004563 RNAse e 5' utr element 882884004564 ribonuclease E; Reviewed; Region: rne; PRK10811 882884004565 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 882884004566 homodimer interface [polypeptide binding]; other site 882884004567 oligonucleotide binding site [chemical binding]; other site 882884004568 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 882884004569 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08027 882884004570 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 882884004571 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 882884004572 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 882884004573 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 882884004574 Rod binding protein; Region: Rod-binding; cl01626 882884004575 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 882884004576 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 882884004577 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 882884004578 Flagellar L-ring protein; Region: FlgH; cl00905 882884004579 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 882884004580 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 882884004581 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 882884004582 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 882884004583 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 882884004584 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 882884004585 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 882884004586 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 882884004587 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 882884004588 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 882884004589 Flagellar hook capping protein; Region: FlgD; cl04347 882884004590 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 882884004591 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 882884004592 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 882884004593 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 882884004594 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 882884004595 SAF domain; Region: SAF; cl00555 882884004596 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 882884004597 FlgN protein; Region: FlgN; cl09176 882884004598 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 882884004599 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 882884004600 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884004601 hypothetical protein; Provisional; Region: PRK11239 882884004602 Protein of unknown function, DUF480; Region: DUF480; cl01209 882884004603 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 882884004604 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 882884004605 multidrug resistance protein MdtH; Provisional; Region: PRK11646 882884004606 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 882884004607 putative substrate translocation pore; other site 882884004608 glutaredoxin 2; Provisional; Region: PRK10387 882884004609 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 882884004610 GST_C family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD (most GRXs range from 9-12kD). GRX2 adopts a GST fold containing an N-terminal thioredoxin-fold...; Region: GST_C_GRX2; cd03199 882884004611 putative dimer interface [polypeptide binding]; other site 882884004612 putative substrate binding pocket (H-site) [chemical binding]; other site 882884004613 N-terminal domain interface [polypeptide binding]; other site 882884004614 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 882884004615 Dihydroorotase [Nucleotide transport and metabolism]; Region: PyrC; COG0418 882884004616 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 882884004617 active site 882884004618 substrate binding pocket [chemical binding]; other site 882884004619 dimer interface [polypeptide binding]; other site 882884004620 DinI-like family; Region: DinI; cl11630 882884004621 biofilm formation regulatory protein BssS; Reviewed; Region: bssS; PRK12301 882884004622 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 882884004623 sarcosine oxidase, monomeric form; Region: soxA_mon; TIGR01377 882884004624 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 882884004625 YceI-like domain; Region: YceI; cl01001 882884004626 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 882884004627 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 882884004628 active site residue [active] 882884004629 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 882884004630 putative acyl-acceptor binding pocket; other site 882884004631 drug efflux system protein MdtG; Provisional; Region: PRK09874 882884004632 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 882884004633 putative substrate translocation pore; other site 882884004634 secY/secA suppressor protein; Provisional; Region: PRK11467 882884004635 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 882884004636 Membrane glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: MdoH; COG2943 882884004637 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 882884004638 Ligand binding site [chemical binding]; other site 882884004639 DXD motif; other site 882884004640 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl01208 882884004641 Predicted O-acyltransferase [General function prediction only]; Region: COG3274; cl00792 882884004642 Acyltransferase family; Region: Acyl_transf_3; pfam01757 882884004643 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 882884004644 putative active site [active] 882884004645 catalytic site [active] 882884004646 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 882884004647 putative active site [active] 882884004648 catalytic site [active] 882884004649 Macro domain, Appr-1'-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 882884004650 putative ADP-ribose binding site [chemical binding]; other site 882884004651 putative active site [active] 882884004652 Thin aggregative fimbriae synthesis protein; Region: Tafi-CsgC; cl11667 882884004653 major curlin subunit; Provisional; Region: csgA; PRK10051 882884004654 Curlin associated repeat; Region: Curlin_rpt; pfam07012 882884004655 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 882884004656 Curlin associated repeat; Region: Curlin_rpt; pfam07012 882884004657 Curlin associated repeat; Region: Curlin_rpt; pfam07012 882884004658 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 882884004659 Curli production assembly/transport component CsgF; Region: Tafi-CsgF; cl08082 882884004660 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 882884004661 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 882884004662 putative hydrolase; Validated; Region: PRK09248 882884004663 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 882884004664 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884004665 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 882884004666 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884004667 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 882884004668 putative sialic acid transporter; Provisional; Region: PRK12307 882884004669 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 882884004670 putative substrate translocation pore; other site 882884004671 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 882884004672 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 882884004673 Kelch motif; Region: Kelch_1; cl02701 882884004674 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 882884004675 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family...; Region: NanE; cd04729 882884004676 putative active site cavity [active] 882884004677 Sodium:solute symporter family; Region: SSF; cl00456 882884004678 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 882884004679 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose...; Region: SIS_RpiR; cd05013 882884004680 putative active site [active] 882884004681 PhoH-like protein; Region: PhoH; cl12134 882884004682 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 882884004683 Type III secretion system leucine rich repeat protein; Region: TTSSLRR; pfam12468 882884004684 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 882884004685 Sodium:solute symporter family; Region: SSF; cl00456 882884004686 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 882884004687 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 882884004688 Predicted transcriptional regulator [Transcription]; Region: COG3905 882884004689 Proline dehydrogenase; Region: Pro_dh; cl03282 882884004690 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 882884004691 Glutamate binding site [chemical binding]; other site 882884004692 NAD binding site [chemical binding]; other site 882884004693 catalytic residues [active] 882884004694 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 882884004695 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 882884004696 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 882884004697 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 882884004698 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 882884004699 hypothetical protein; Provisional; Region: PRK10174 882884004700 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 882884004701 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 882884004702 catalytic core [active] 882884004703 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 882884004704 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif...; Region: TlpA_like_ScsD_MtbDsbE; cd03011 882884004705 catalytic residues [active] 882884004706 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 882884004707 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a...; Region: DsbA_Com1_like; cd03023 882884004708 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 882884004709 catalytic residues [active] 882884004710 Uncharacterized protein predicted to be involved in C-type cytochrome biogenesis [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4233 882884004711 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 882884004712 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 882884004713 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 882884004714 DsbD alpha interface [polypeptide binding]; other site 882884004715 catalytic residues [active] 882884004716 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 882884004717 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...; Region: DnaJ; cd06257 882884004718 HSP70 interaction site [polypeptide binding]; other site 882884004719 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 882884004720 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 882884004721 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 882884004722 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 882884004723 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 882884004724 Cupin domain; Region: Cupin_2; cl09118 882884004725 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882884004726 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 882884004727 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 882884004728 putative substrate translocation pore; other site 882884004729 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 882884004730 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 882884004731 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 882884004732 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 882884004733 putative substrate binding pocket [chemical binding]; other site 882884004734 trimer interface [polypeptide binding]; other site 882884004735 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 882884004736 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 882884004737 putative active site [active] 882884004738 putative metal binding site [ion binding]; other site 882884004739 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 882884004740 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 882884004741 NAD binding site [chemical binding]; other site 882884004742 catalytic residues [active] 882884004743 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase; Provisional; Region: PRK15203 882884004744 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 882884004745 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 882884004746 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884004747 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-2; TIGR02310 882884004748 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 882884004749 Flavin Reductases; Region: FlaRed; cl00801 882884004750 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU)...; Region: TLP_HIUase; cd05822 882884004751 active site 882884004752 homotetramer interface [polypeptide binding]; other site 882884004753 transcriptional regulatory protein YedW; Provisional; Region: PRK11517 882884004754 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884004755 active site 882884004756 phosphorylation site [posttranslational modification] 882884004757 intermolecular recognition site; other site 882884004758 dimerization interface [polypeptide binding]; other site 882884004759 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...; Region: trans_reg_C; cd00383 882884004760 DNA binding site [nucleotide binding] 882884004761 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 882884004762 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 connected by an extended linker. The...; Region: HAMP; cl01054 882884004763 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 trans-...; Region: HisKA; cd00082 882884004764 dimer interface [polypeptide binding]; other site 882884004765 phosphorylation site [posttranslational modification] 882884004766 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884004767 ATP binding site [chemical binding]; other site 882884004768 Mg2+ binding site [ion binding]; other site 882884004769 G-X-G motif; other site 882884004770 Peptidase family C69; Region: Peptidase_C69; cl01920 882884004771 inositol phosphate phosphatase SopB; Provisional; Region: PRK15378 882884004772 Type III secretion chaperone domain; Region: Chaperone_III; cl06729 882884004773 antimicrobial resistance protein Mig-14; Provisional; Region: PRK15312 882884004774 secreted effector protein PipB; Provisional; Region: PRK15197 882884004775 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 882884004776 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 882884004777 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 882884004778 catalytic residues [active] 882884004779 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 882884004780 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 882884004781 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 882884004782 BAX inhibitor (BI)-1 like protein family. Mammalian members of this family of small transmembrane proteins have been shown to have an antiapoptotic effect either by stimulating the antiapoptotic function of Bcl-2, a well characterized oncogene, or...; Region: BI-1-like; cd06181 882884004783 DsrC like protein; Region: DsrC; cl01101 882884004784 Acylphosphatase; Region: Acylphosphatase; cl00551 882884004785 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 882884004786 PUA domain; Region: PUA; cl00607 882884004787 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 882884004788 S-adenosylmethionine binding site [chemical binding]; other site 882884004789 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; cl01548 882884004790 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884004791 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 882884004792 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 882884004793 active site 882884004794 dimer interfaces [polypeptide binding]; other site 882884004795 catalytic residues [active] 882884004796 DNA helicase IV; Provisional; Region: helD; PRK11054 882884004797 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 882884004798 UvrD/REP helicase; Region: UvrD-helicase; cl14126 882884004799 hypothetical protein; Provisional; Region: PRK11770 882884004800 Domain of unknown function (DUF307); Region: DUF307; pfam03733 882884004801 Domain of unknown function (DUF307); Region: DUF307; pfam03733 882884004802 hypothetical membrane protein, TIGR01666; Region: YCCS 882884004803 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 882884004804 TfoX N-terminal domain; Region: TfoX_N; cl01167 882884004805 TfoX N-terminal domain; Region: TfoX_N; cl01167 882884004806 Cell division inhibitor SulA; Region: SulA; cl01880 882884004807 outer membrane protein A; Reviewed; Region: PRK10808 882884004808 Surface antigen; Region: Surface_Ag_2; cl01155 882884004809 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 882884004810 ligand binding site [chemical binding]; other site 882884004811 Organiser of macrodomain of Terminus of chromosome; Region: MatP; cl11476 882884004812 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 882884004813 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 882884004814 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 882884004815 active site 1 [active] 882884004816 dimer interface [polypeptide binding]; other site 882884004817 active site 2 [active] 882884004818 Protein of unknown function (DUF330); Region: DUF330; cl01135 882884004819 paraquat-inducible protein B; Provisional; Region: PRK10807 882884004820 mce related protein; Region: MCE; cl03606 882884004821 mce related protein; Region: MCE; cl03606 882884004822 mce related protein; Region: MCE; cl03606 882884004823 Paraquat-inducible protein A; Region: PqiA; pfam04403 882884004824 Paraquat-inducible protein A; Region: PqiA; pfam04403 882884004825 ABC transporter ATPase component; Reviewed; Region: PRK11147 882884004826 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884004827 Walker A/P-loop; other site 882884004828 ATP binding site [chemical binding]; other site 882884004829 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884004830 Q-loop/lid; other site 882884004831 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 882884004832 ABC transporter; Region: ABC_tran_2; pfam12848 882884004833 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 882884004834 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 882884004835 THUMP domain; Region: THUMP; cl12076 882884004836 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 882884004837 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 882884004838 S-adenosylmethionine binding site [chemical binding]; other site 882884004839 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 882884004840 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 882884004841 MOSC domain; Region: MOSC; pfam03473 882884004842 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 882884004843 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD...; Region: DHOD_2_like; cd04738 882884004844 quinone interaction residues [chemical binding]; other site 882884004845 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 882884004846 active site 882884004847 catalytic residues [active] 882884004848 FMN binding site [chemical binding]; other site 882884004849 substrate binding site [chemical binding]; other site 882884004850 aminopeptidase N; Provisional; Region: pepN; PRK14015 882884004851 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 882884004852 active site 882884004853 Zn binding site [ion binding]; other site 882884004854 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 882884004855 pathogenicity island 2 effector protein SseI; Provisional; Region: PRK15372 882884004856 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; cl05448 882884004857 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 882884004858 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting...; Region: PncB_like; cd01401 882884004859 active site 882884004860 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 882884004861 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 (...; Region: EcAsnRS_like_N; cd04318 882884004862 putative dimer interface [polypeptide binding]; other site 882884004863 putative anticodon binding site; other site 882884004864 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...; Region: AsxRS_core; cd00776 882884004865 homodimer interface [polypeptide binding]; other site 882884004866 motif 1; other site 882884004867 motif 2; other site 882884004868 active site 882884004869 motif 3; other site 882884004870 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface...; Region: gram_neg_porins; cd00342 882884004871 trimer interface [polypeptide binding]; other site 882884004872 eyelet of channel; other site 882884004873 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 882884004874 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884004875 homodimer interface [polypeptide binding]; other site 882884004876 catalytic residue [active] 882884004877 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 882884004878 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 882884004879 Peptidase M15; Region: Peptidase_M15_3; cl01194 882884004880 murein L,D-transpeptidase; Provisional; Region: PRK10594 882884004881 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 882884004882 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 882884004883 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 882884004884 cell division protein MukB; Provisional; Region: mukB; PRK04863 882884004885 MukB N-terminal; Region: MukB; pfam04310 882884004886 MukE-like family; Region: MukE; cl11471 882884004887 KicB killing factor; Region: KicB; cl11468 882884004888 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1, 4-benzoquinol methylase [Coenzyme metabolism]; Region: UbiG; COG2227 882884004889 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 882884004890 S-adenosylmethionine binding site [chemical binding]; other site 882884004891 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 882884004892 putative active site [active] 882884004893 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 882884004894 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 882884004895 Ligand binding site [chemical binding]; other site 882884004896 oligomer interface [polypeptide binding]; other site 882884004897 Trm112p-like protein; Region: Trm112p; cl01066 882884004898 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 882884004899 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 882884004900 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 882884004901 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 882884004902 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 882884004903 Walker A/P-loop; other site 882884004904 ATP binding site [chemical binding]; other site 882884004905 Q-loop/lid; other site 882884004906 ABC transporter signature motif; other site 882884004907 Walker B; other site 882884004908 D-loop; other site 882884004909 H-loop/switch region; other site 882884004910 ComEC family competence protein; Provisional; Region: PRK11539 882884004911 Competence protein; Region: Competence; cl00471 882884004912 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 882884004913 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 higher-...; Region: HU_IHF; cd00591 882884004914 IHF dimer interface [polypeptide binding]; other site 882884004915 IHF - DNA interface [nucleotide binding]; other site 882884004916 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 882884004917 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 882884004918 RNA binding site [nucleotide binding]; other site 882884004919 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 882884004920 RNA binding site [nucleotide binding]; other site 882884004921 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 882884004922 RNA binding site [nucleotide binding]; other site 882884004923 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec4; cd05689 882884004924 RNA binding site [nucleotide binding]; other site 882884004925 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 882884004926 RNA binding site [nucleotide binding]; other site 882884004927 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec6; cd05691 882884004928 RNA binding site [nucleotide binding]; other site 882884004929 cytidylate kinase; Provisional; Region: cmk; PRK00023 882884004930 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 882884004931 CMP-binding site; other site 882884004932 The sites determining sugar specificity; other site 882884004933 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 882884004934 Enol pyruvate transferases family includes EPSP synthases and UDP-N-acetylglucosamine enolpyruvyl transferase. Both enzymes catalyze the reaction of enolpyruvyl transfer; Region: EPT-like; cd01554 882884004935 hinge; other site 882884004936 active site 882884004937 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active...; Region: PSAT_like; cd00611 882884004938 homodimer interface [polypeptide binding]; other site 882884004939 substrate-cofactor binding pocket; other site 882884004940 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884004941 catalytic residue [active] 882884004942 Protein of unknown function (DUF421); Region: DUF421; cl00990 882884004943 YcaO-like family; Region: YcaO; cl09146 882884004944 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 882884004945 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 882884004946 Pyruvate formate lyase 1; Region: PFL1; cd01678 882884004947 coenzyme A binding site [chemical binding]; other site 882884004948 active site 882884004949 catalytic residues [active] 882884004950 glycine loop; other site 882884004951 pathogenicity island 1 protein SopD2; Provisional; Region: PRK15380; cl14701 882884004952 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; cl14056 882884004953 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 882884004954 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 882884004955 putative MFS family transporter protein; Provisional; Region: PRK03633 882884004956 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 882884004957 putative substrate translocation pore; other site 882884004958 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; cl00220 882884004959 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl04869 882884004960 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 882884004961 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 882884004962 anaerobic dimethyl sulfoxide reductase subunit A; Provisional; Region: PRK14990 882884004963 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted N-...; Region: MopB_DmsA-EC; cd02770 882884004964 putative [Fe4-S4] binding site [ion binding]; other site 882884004965 putative molybdopterin cofactor binding site [chemical binding]; other site 882884004966 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted N-...; Region: MopB_CT_DmsA-EC; cd02794 882884004967 putative molybdopterin cofactor binding site; other site 882884004968 seryl-tRNA synthetase; Provisional; Region: PRK05431 882884004969 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 882884004970 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 882884004971 dimer interface [polypeptide binding]; other site 882884004972 active site 882884004973 motif 1; other site 882884004974 motif 2; other site 882884004975 motif 3; other site 882884004976 recombination factor protein RarA; Reviewed; Region: PRK13342 882884004977 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...; Region: AAA; cd00009 882884004978 Walker A motif; other site 882884004979 ATP binding site [chemical binding]; other site 882884004980 Walker B motif; other site 882884004981 arginine finger; other site 882884004982 MgsA AAA+ ATPase C terminal; Region: MgsA_C; cl13440 882884004983 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 882884004984 DNA translocase FtsK; Provisional; Region: PRK10263 882884004985 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]; Region: VirB11; COG0630 882884004986 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884004987 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 882884004988 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 882884004989 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884004990 thioredoxin reductase; Provisional; Region: PRK10262 882884004991 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 882884004992 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 882884004993 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 882884004994 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884004995 Walker A/P-loop; other site 882884004996 ATP binding site [chemical binding]; other site 882884004997 Q-loop/lid; other site 882884004998 ABC transporter signature motif; other site 882884004999 Walker B; other site 882884005000 D-loop; other site 882884005001 H-loop/switch region; other site 882884005002 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 882884005003 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 882884005004 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884005005 Walker A/P-loop; other site 882884005006 ATP binding site [chemical binding]; other site 882884005007 Q-loop/lid; other site 882884005008 ABC transporter signature motif; other site 882884005009 Walker B; other site 882884005010 D-loop; other site 882884005011 H-loop/switch region; other site 882884005012 Leucyl/phenylalanyl-tRNA protein transferase; Region: Leu_Phe_trans; cl01006 882884005013 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 882884005014 rRNA binding site [nucleotide binding]; other site 882884005015 predicted 30S ribosome binding site; other site 882884005016 LysR family transcriptional regulator; Provisional; Region: PRK14997 882884005017 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884005018 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 882884005019 putative effector binding pocket; other site 882884005020 putative dimerization interface [polypeptide binding]; other site 882884005021 Pirin-related protein [General function prediction only]; Region: COG1741 882884005022 Cupin domain; Region: Cupin_2; cl09118 882884005023 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 882884005024 Isochorismatase family; Region: Isochorismatase; pfam00857 882884005025 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 882884005026 catalytic triad [active] 882884005027 dimer interface [polypeptide binding]; other site 882884005028 conserved cis-peptide bond; other site 882884005029 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 882884005030 Clp amino terminal domain; Region: Clp_N; pfam02861 882884005031 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...; Region: AAA; cd00009 882884005032 Walker A motif; other site 882884005033 ATP binding site [chemical binding]; other site 882884005034 Walker B motif; other site 882884005035 arginine finger; other site 882884005036 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...; Region: AAA; cd00009 882884005037 Walker A motif; other site 882884005038 ATP binding site [chemical binding]; other site 882884005039 Walker B motif; other site 882884005040 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 882884005041 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 882884005042 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 882884005043 DNA-binding site [nucleotide binding]; DNA binding site 882884005044 RNA-binding motif; other site 882884005045 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 882884005046 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 882884005047 Walker A/P-loop; other site 882884005048 ATP binding site [chemical binding]; other site 882884005049 Q-loop/lid; other site 882884005050 ABC transporter signature motif; other site 882884005051 Walker B; other site 882884005052 D-loop; other site 882884005053 H-loop/switch region; other site 882884005054 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 882884005055 FtsX-like permease family; Region: FtsX; pfam02687 882884005056 macrolide transporter subunit MacA; Provisional; Region: PRK11578 882884005057 Protein of unknown function (DUF535); Region: DUF535; cl01128 882884005058 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 882884005059 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 882884005060 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 882884005061 putative active site [active] 882884005062 putative metal-binding site [ion binding]; other site 882884005063 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 882884005064 hybrid cluster protein; Provisional; Region: PRK05290 882884005065 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 alpha-; Region: HCP_like; cl14655 882884005066 ACS interaction site; other site 882884005067 CODH interaction site; other site 882884005068 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 882884005069 hybrid metal cluster; other site 882884005070 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 882884005071 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 882884005072 FAD binding pocket [chemical binding]; other site 882884005073 FAD binding motif [chemical binding]; other site 882884005074 phosphate binding motif [ion binding]; other site 882884005075 beta-alpha-beta structure motif; other site 882884005076 NAD binding pocket [chemical binding]; other site 882884005077 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 882884005078 catalytic loop [active] 882884005079 iron binding site [ion binding]; other site 882884005080 pyruvate dehydrogenase; Provisional; Region: PRK09124 882884005081 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 882884005082 PYR/PP interface [polypeptide binding]; other site 882884005083 tetramer interface [polypeptide binding]; other site 882884005084 dimer interface [polypeptide binding]; other site 882884005085 TPP binding site [chemical binding]; other site 882884005086 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 882884005087 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX...; Region: TPP_POX; cd02014 882884005088 TPP-binding site [chemical binding]; other site 882884005089 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 882884005090 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 882884005091 tetramer interface [polypeptide binding]; other site 882884005092 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884005093 catalytic residue [active] 882884005094 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 882884005095 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 882884005096 putative NAD(P) binding site [chemical binding]; other site 882884005097 putative active site [active] 882884005098 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 882884005099 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 882884005100 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884005101 NAD(P) binding site [chemical binding]; other site 882884005102 active site 882884005103 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 882884005104 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 882884005105 amidase catalytic site [active] 882884005106 Zn binding residues [ion binding]; other site 882884005107 substrate binding site [chemical binding]; other site 882884005108 Domain of unknown function (DUF74); Region: DUF74; cl00426 882884005109 Integrase core domain; Region: rve; cl01316 882884005110 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; cl01116 882884005111 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 882884005112 DNA binding site [nucleotide binding] 882884005113 active site 882884005114 Int/Topo IB signature motif; other site 882884005115 putative lipoprotein; Provisional; Region: PRK10533 882884005116 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 882884005117 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884005118 Walker A/P-loop; other site 882884005119 ATP binding site [chemical binding]; other site 882884005120 Q-loop/lid; other site 882884005121 ABC transporter signature motif; other site 882884005122 Walker B; other site 882884005123 D-loop; other site 882884005124 H-loop/switch region; other site 882884005125 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 882884005126 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...; Region: TM_PBP2; cd06261 882884005127 dimer interface [polypeptide binding]; other site 882884005128 conserved gate region; other site 882884005129 putative PBP binding loops; other site 882884005130 ABC-ATPase subunit interface; other site 882884005131 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...; Region: TM_PBP2; cd06261 882884005132 dimer interface [polypeptide binding]; other site 882884005133 conserved gate region; other site 882884005134 putative PBP binding loops; other site 882884005135 ABC-ATPase subunit interface; other site 882884005136 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 882884005137 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...; Region: PBPb; cd00134 882884005138 substrate binding pocket [chemical binding]; other site 882884005139 membrane-bound complex binding site; other site 882884005140 hinge residues; other site 882884005141 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 882884005142 Sulfatase; Region: Sulfatase; cl10460 882884005143 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 882884005144 P-loop; other site 882884005145 active site 882884005146 phosphorylation site [posttranslational modification] 882884005147 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 882884005148 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 882884005149 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 882884005150 S-adenosylmethionine binding site [chemical binding]; other site 882884005151 Protein of unknown function (DUF2593); Region: DUF2593; pfam10767 882884005152 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 882884005153 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...; Region: TM_PBP2; cd06261 882884005154 dimer interface [polypeptide binding]; other site 882884005155 conserved gate region; other site 882884005156 putative PBP binding loops; other site 882884005157 ABC-ATPase subunit interface; other site 882884005158 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...; Region: TM_PBP2; cd06261 882884005159 dimer interface [polypeptide binding]; other site 882884005160 conserved gate region; other site 882884005161 putative PBP binding loops; other site 882884005162 ABC-ATPase subunit interface; other site 882884005163 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 882884005164 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues...; Region: ABC_PotA_N; cd03300 882884005165 Walker A/P-loop; other site 882884005166 ATP binding site [chemical binding]; other site 882884005167 Q-loop/lid; other site 882884005168 ABC transporter signature motif; other site 882884005169 Walker B; other site 882884005170 D-loop; other site 882884005171 H-loop/switch region; other site 882884005172 TOBE domain; Region: TOBE_2; cl01440 882884005173 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 882884005174 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884005175 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 882884005176 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 882884005177 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 882884005178 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH...; Region: NfsA_FRP; cd02146 882884005179 dimer interface [polypeptide binding]; other site 882884005180 FMN binding site [chemical binding]; other site 882884005181 NADPH bind site [chemical binding]; other site 882884005182 Protein of unknown function (DUF1418); Region: DUF1418; cl11648 882884005183 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 882884005184 GSH binding site [chemical binding]; other site 882884005185 catalytic residues [active] 882884005186 Putative inner membrane protein of Enterobacteriaceae; Region: YbjM; pfam11045 882884005187 putative transporter; Provisional; Region: PRK04972 882884005188 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 882884005189 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 882884005190 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 882884005191 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 882884005192 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 882884005193 putative substrate translocation pore; other site 882884005194 Major Facilitator Superfamily; Region: MFS_1; pfam07690 882884005195 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 882884005196 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; cl11391 882884005197 active site 882884005198 motif I; other site 882884005199 motif II; other site 882884005200 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 882884005201 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 882884005202 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 882884005203 putative substrate translocation pore; other site 882884005204 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 882884005205 active site 882884005206 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 882884005207 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884005208 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 882884005209 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional; Region: PRK10001 882884005210 Beta-lactamase; Region: Beta-lactamase; cl01009 882884005211 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 882884005212 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 882884005213 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 882884005214 putative C-terminal domain interface [polypeptide binding]; other site 882884005215 putative GSH binding site (G-site) [chemical binding]; other site 882884005216 putative dimer interface [polypeptide binding]; other site 882884005217 GST_C family, unknown subfamily 2; composed of uncharacterized bacterial proteins, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_C_2; cd03180 882884005218 putative N-terminal domain interface [polypeptide binding]; other site 882884005219 putative dimer interface [polypeptide binding]; other site 882884005220 putative substrate binding pocket (H-site) [chemical binding]; other site 882884005221 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 882884005222 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 882884005223 Biofilm formation protein (YliH/bssR); Region: YliH; cl08211 882884005224 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 882884005225 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 882884005226 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 882884005227 FeS/SAM binding site; other site 882884005228 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 882884005229 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 882884005230 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...; Region: TM_PBP2; cd06261 882884005231 dimer interface [polypeptide binding]; other site 882884005232 conserved gate region; other site 882884005233 putative PBP binding loops; other site 882884005234 ABC-ATPase subunit interface; other site 882884005235 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 882884005236 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...; Region: TM_PBP2; cd06261 882884005237 dimer interface [polypeptide binding]; other site 882884005238 conserved gate region; other site 882884005239 putative PBP binding loops; other site 882884005240 ABC-ATPase subunit interface; other site 882884005241 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 882884005242 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 882884005243 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 882884005244 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 882884005245 Walker A/P-loop; other site 882884005246 ATP binding site [chemical binding]; other site 882884005247 Q-loop/lid; other site 882884005248 ABC transporter signature motif; other site 882884005249 Walker B; other site 882884005250 D-loop; other site 882884005251 H-loop/switch region; other site 882884005252 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 882884005253 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 882884005254 Walker A/P-loop; other site 882884005255 ATP binding site [chemical binding]; other site 882884005256 Q-loop/lid; other site 882884005257 ABC transporter signature motif; other site 882884005258 Walker B; other site 882884005259 D-loop; other site 882884005260 H-loop/switch region; other site 882884005261 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 882884005262 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 882884005263 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 882884005264 dimer interface [polypeptide binding]; other site 882884005265 putative functional site; other site 882884005266 putative MPT binding site; other site 882884005267 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 882884005268 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...; Region: ThiF_MoeB_HesA_family; cd00757 882884005269 ATP binding site [chemical binding]; other site 882884005270 substrate interface [chemical binding]; other site 882884005271 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 882884005272 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 882884005273 FeS/SAM binding site; other site 882884005274 pyruvate formate-lyase; Region: PFL2-3; TIGR01774 882884005275 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 882884005276 dimer interface [polypeptide binding]; other site 882884005277 active site 882884005278 glycine loop; other site 882884005279 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 882884005280 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 882884005281 active site 882884005282 motif I; other site 882884005283 motif II; other site 882884005284 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 882884005285 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 882884005286 Transcriptional regulators [Transcription]; Region: PurR; COG1609 882884005287 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 882884005288 DNA binding site [nucleotide binding] 882884005289 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 882884005290 ligand binding site [chemical binding]; other site 882884005291 dimerization interface [polypeptide binding]; other site 882884005292 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 882884005293 D-galactonate transporter; Region: 2A0114; TIGR00893 882884005294 putative substrate translocation pore; other site 882884005295 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 882884005296 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 882884005297 putative active site [active] 882884005298 putative catalytic site [active] 882884005299 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 882884005300 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884005301 Walker A/P-loop; other site 882884005302 ATP binding site [chemical binding]; other site 882884005303 Q-loop/lid; other site 882884005304 ABC transporter signature motif; other site 882884005305 Walker B; other site 882884005306 D-loop; other site 882884005307 H-loop/switch region; other site 882884005308 ABC transporter; Region: ABC_tran_2; pfam12848 882884005309 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 882884005310 L,D-transpeptidase; Provisional; Region: PRK10260 882884005311 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 882884005312 Putative anion permease YbiR. Based on sequence similarity, YbiR proteins are predicted to function as anion translocating permeases in eubacteria, archaea and plants. They belong to ArsB/NhaD superfamily of permeases that have been shown to...; Region: YbiR_permease; cd01117 882884005313 transmembrane helices; other site 882884005314 manganese transport regulator MntR; Provisional; Region: PRK11050 882884005315 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884005316 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 882884005317 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 882884005318 Sulfatase; Region: Sulfatase; cl10460 882884005319 Surface antigen; Region: Surface_Ag_2; cl01155 882884005320 threonine and homoserine efflux system; Provisional; Region: PRK10532 882884005321 EamA-like transporter family; Region: EamA; cl01037 882884005322 Ferritin-like domain; Region: Ferritin; pfam00210 882884005323 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 882884005324 dimerization interface [polypeptide binding]; other site 882884005325 DPS ferroxidase diiron center [ion binding]; other site 882884005326 ion pore; other site 882884005327 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 882884005328 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...; Region: PBPb; cd00134 882884005329 substrate binding pocket [chemical binding]; other site 882884005330 membrane-bound complex binding site; other site 882884005331 hinge residues; other site 882884005332 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 882884005333 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...; Region: TM_PBP2; cd06261 882884005334 dimer interface [polypeptide binding]; other site 882884005335 conserved gate region; other site 882884005336 putative PBP binding loops; other site 882884005337 ABC-ATPase subunit interface; other site 882884005338 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 882884005339 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 882884005340 Walker A/P-loop; other site 882884005341 ATP binding site [chemical binding]; other site 882884005342 Q-loop/lid; other site 882884005343 ABC transporter signature motif; other site 882884005344 Walker B; other site 882884005345 D-loop; other site 882884005346 H-loop/switch region; other site 882884005347 putative mechanosensitive channel protein; Provisional; Region: PRK11465 882884005348 Mechanosensitive ion channel; Region: MS_channel; pfam00924 882884005349 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 882884005350 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 882884005351 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 882884005352 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 882884005353 glycosyl transferase family protein; Provisional; Region: PRK08136 882884005354 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 882884005355 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 882884005356 DEAD_2; Region: DEAD_2; cl14887 882884005357 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl09250 882884005358 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 882884005359 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 882884005360 ATP binding site [chemical binding]; other site 882884005361 Mg++ binding site [ion binding]; other site 882884005362 motif III; other site 882884005363 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 882884005364 nucleotide binding region [chemical binding]; other site 882884005365 ATP-binding site [chemical binding]; other site 882884005366 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 882884005367 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 882884005368 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 882884005369 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 882884005370 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 882884005371 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884005372 Walker A/P-loop; other site 882884005373 ATP binding site [chemical binding]; other site 882884005374 Q-loop/lid; other site 882884005375 ABC transporter signature motif; other site 882884005376 Walker B; other site 882884005377 D-loop; other site 882884005378 H-loop/switch region; other site 882884005379 PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 882884005380 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884005381 Walker A/P-loop; other site 882884005382 ATP binding site [chemical binding]; other site 882884005383 Q-loop/lid; other site 882884005384 ABC transporter signature motif; other site 882884005385 Walker B; other site 882884005386 D-loop; other site 882884005387 H-loop/switch region; other site 882884005388 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 882884005389 ABC-2 type transporter; Region: ABC2_membrane; cl11417 882884005390 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 882884005391 ABC-2 type transporter; Region: ABC2_membrane; cl11417 882884005392 Putative inner membrane protein YbhQ; Region: YbhQ; pfam11076 882884005393 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 882884005394 putative catalytic site [active] 882884005395 putative phosphate binding site [ion binding]; other site 882884005396 putative metal binding site [ion binding]; other site 882884005397 cardiolipin synthase 2; Provisional; Region: PRK11263 882884005398 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 882884005399 putative active site [active] 882884005400 catalytic site [active] 882884005401 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 882884005402 putative active site [active] 882884005403 catalytic site [active] 882884005404 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 882884005405 BAX inhibitor (BI)-1 like protein family. Mammalian members of this family of small transmembrane proteins have been shown to have an antiapoptotic effect either by stimulating the antiapoptotic function of Bcl-2, a well characterized oncogene, or...; Region: BI-1-like; cd06181 882884005406 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 882884005407 MoaE homodimer interface [polypeptide binding]; other site 882884005408 MoaD interaction [polypeptide binding]; other site 882884005409 active site residues [active] 882884005410 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 882884005411 MoaE interaction surface [polypeptide binding]; other site 882884005412 MoeB interaction surface [polypeptide binding]; other site 882884005413 thiocarboxylated glycine; other site 882884005414 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...; Region: MoaC_PE; cd01420 882884005415 trimer interface [polypeptide binding]; other site 882884005416 dimer interface [polypeptide binding]; other site 882884005417 putative active site [active] 882884005418 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 882884005419 MPT binding site; other site 882884005420 trimer interface [polypeptide binding]; other site 882884005421 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 882884005422 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 882884005423 FeS/SAM binding site; other site 882884005424 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 882884005425 Uncharacterised protein family UPF0052; Region: UPF0052; pfam01933 882884005426 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 882884005427 putative substrate binding pocket [chemical binding]; other site 882884005428 dimer interface [polypeptide binding]; other site 882884005429 phosphate binding site [ion binding]; other site 882884005430 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 882884005431 pathogenicity island 2 effector protein SseI; Provisional; Region: PRK15372 882884005432 Type III secretion system leucine rich repeat protein; Region: TTSSLRR; pfam12468 882884005433 excinuclease ABC subunit B; Provisional; Region: PRK05298 882884005434 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 882884005435 ATP binding site [chemical binding]; other site 882884005436 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 882884005437 nucleotide binding region [chemical binding]; other site 882884005438 ATP-binding site [chemical binding]; other site 882884005439 Ultra-violet resistance protein B; Region: UvrB; pfam12344 882884005440 UvrB/uvrC motif; Region: UVR; pfam02151 882884005441 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 882884005442 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 882884005443 Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and...; Region: DTBS; cd03109 882884005444 active site 882884005445 ADP binding site [chemical binding]; other site 882884005446 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 882884005447 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 882884005448 S-adenosylmethionine binding site [chemical binding]; other site 882884005449 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 882884005450 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 882884005451 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 882884005452 catalytic residue [active] 882884005453 biotin synthase; Provisional; Region: PRK15108 882884005454 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 882884005455 FeS/SAM binding site; other site 882884005456 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 882884005457 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 882884005458 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 882884005459 inhibitor-cofactor binding pocket; inhibition site 882884005460 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884005461 catalytic residue [active] 882884005462 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 882884005463 substrate binding site [chemical binding]; other site 882884005464 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 882884005465 tyrosine 2,3-aminomutase; Region: Tyr_2_3_mutase; TIGR03832 882884005466 active sites [active] 882884005467 tetramer interface [polypeptide binding]; other site 882884005468 urocanate hydratase; Provisional; Region: PRK05414 882884005469 urocanate hydratase; Region: hutU; TIGR01228 882884005470 histidine utilization repressor; Provisional; Region: PRK14999 882884005471 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882884005472 DNA-binding site [nucleotide binding]; DNA binding site 882884005473 UTRA domain; Region: UTRA; cl06649 882884005474 Arginase family; Region: Arginase; cl00306 882884005475 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 882884005476 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria...; Region: Imidazolone-5PH; cd01296 882884005477 active site 882884005478 Pectin methylesterase [Carbohydrate transport and metabolism]; Region: PemB; COG4677 882884005479 Pectinesterase; Region: Pectinesterase; cl01911 882884005480 Protein of unknown function (DUF560); Region: DUF560; pfam04575 882884005481 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 882884005482 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; cl01116 882884005483 putative transposase OrfB; Reviewed; Region: PHA02517 882884005484 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 882884005485 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 882884005486 IucA / IucC family; Region: IucA_IucC; pfam04183 882884005487 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 882884005488 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 882884005489 Siderophore biosynthesis protein domain; Region: AlcB; pfam10331 882884005490 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 882884005491 IucA / IucC family; Region: IucA_IucC; pfam04183 882884005492 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 882884005493 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 882884005494 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 882884005495 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 882884005496 N-terminal plug; other site 882884005497 ligand-binding site [chemical binding]; other site 882884005498 6-phosphogluconolactonase; Provisional; Region: PRK11028 882884005499 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 882884005500 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 882884005501 active site 882884005502 motif I; other site 882884005503 motif II; other site 882884005504 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; cl11391 882884005505 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 882884005506 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884005507 Walker A/P-loop; other site 882884005508 ATP binding site [chemical binding]; other site 882884005509 Q-loop/lid; other site 882884005510 ABC transporter signature motif; other site 882884005511 Walker B; other site 882884005512 D-loop; other site 882884005513 H-loop/switch region; other site 882884005514 TOBE domain; Region: TOBE_2; cl01440 882884005515 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...; Region: TM_PBP2; cd06261 882884005516 dimer interface [polypeptide binding]; other site 882884005517 conserved gate region; other site 882884005518 putative PBP binding loops; other site 882884005519 ABC-ATPase subunit interface; other site 882884005520 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884005521 Protein of unknown function (DUF2592); Region: DUF2592; pfam10766 882884005522 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 882884005523 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884005524 TOBE domain; Region: TOBE_2; cl01440 882884005525 TOBE domain; Region: TOBE_2; cl01440 882884005526 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 882884005527 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884005528 Walker A/P-loop; other site 882884005529 ATP binding site [chemical binding]; other site 882884005530 Q-loop/lid; other site 882884005531 ABC transporter signature motif; other site 882884005532 Walker B; other site 882884005533 D-loop; other site 882884005534 H-loop/switch region; other site 882884005535 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884005536 Walker A/P-loop; other site 882884005537 ATP binding site [chemical binding]; other site 882884005538 Q-loop/lid; other site 882884005539 ABC transporter signature motif; other site 882884005540 Walker B; other site 882884005541 D-loop; other site 882884005542 H-loop/switch region; other site 882884005543 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 882884005544 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884005545 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 882884005546 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 882884005547 dimer interface [polypeptide binding]; other site 882884005548 active site 882884005549 galactokinase; Provisional; Region: PRK05101 882884005550 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 882884005551 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 882884005552 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 882884005553 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 882884005554 active site 882884005555 catalytic residues [active] 882884005556 YdjC-like protein; Region: YdjC; cl01344 882884005557 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 882884005558 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 882884005559 NAD binding site [chemical binding]; other site 882884005560 sugar binding site [chemical binding]; other site 882884005561 divalent metal binding site [ion binding]; other site 882884005562 tetramer (dimer of dimers) interface [polypeptide binding]; other site 882884005563 dimer interface [polypeptide binding]; other site 882884005564 DNA-binding transcriptional regulator ChbR; Provisional; Region: PRK10296 882884005565 Cupin domain; Region: Cupin_2; cl09118 882884005566 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882884005567 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 882884005568 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 882884005569 catalytic core [active] 882884005570 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 882884005571 NeuB family; Region: NeuB; cl00496 882884005572 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 882884005573 Cation efflux family; Region: Cation_efflux; cl00316 882884005574 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 882884005575 Quinolinate synthetase A protein; Region: NadA; cl00420 882884005576 tol-pal system protein YbgF; Provisional; Region: PRK10803 882884005577 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 882884005578 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 882884005579 ligand binding site [chemical binding]; other site 882884005580 translocation protein TolB; Provisional; Region: tolB; PRK03629 882884005581 TolB amino-terminal domain; Region: TolB_N; pfam04052 882884005582 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 882884005583 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 882884005584 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 882884005585 TolA C-terminal; Region: TolA; pfam06519 882884005586 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 882884005587 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 882884005588 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 882884005589 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...; Region: 4HBT; cd00586 882884005590 active site 882884005591 Cyd operon protein YbgE (Cyd_oper_YbgE); Region: Cyd_oper_YbgE; cl11451 882884005592 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 882884005593 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 882884005594 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 882884005595 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 882884005596 B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'-...; Region: Glm_B12_BD; cd02072 882884005597 B12 binding site [chemical binding]; other site 882884005598 heterodimer interface [polypeptide binding]; other site 882884005599 cobalt ligand [ion binding]; other site 882884005600 conserved hypothetical protein; Region: glmL_fam; TIGR01319 882884005601 Coenzyme B12-dependent glutamate mutase epsilon subunit-like family; contains proteins similar to Clostridium cochlearium glutamate mutase (Glm) and Streptomyces tendae Tu901 NikV. Glm catalyzes a carbon-skeleton rearrangement of L-glutamate to L-threo-; Region: Glm_e; cd00245 882884005602 substrate binding site [chemical binding]; other site 882884005603 B12 cofactor binding site [chemical binding]; other site 882884005604 heterodimer (sigma-epsilon) interface [polypeptide binding]; other site 882884005605 homodimer (epsilon-epsilon) interface [polypeptide binding]; other site 882884005606 Methylaspartate ammonia-lyase [Amino acid transport and metabolism]; Region: Mal; COG3799 882884005607 Methylaspartate ammonia lyase (3-methylaspartase, MAL) is a homodimeric enzyme, catalyzing the magnesium-dependent reversible alpha,beta-elimination of ammonia from L-threo-(2S,3S)-3-methylaspartic acid to mesaconic acid. This reaction is part of the...; Region: MAL; cd03314 882884005608 dimer interface [polypeptide binding]; other site 882884005609 active site 882884005610 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 882884005611 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 882884005612 putative fumarate hydratase; Provisional; Region: PRK15392 882884005613 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 882884005614 Fumarase C-terminus; Region: Fumerase_C; cl00795 882884005615 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 882884005616 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 882884005617 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...; Region: CobA_CobO_BtuR; cd00561 882884005618 homodimer interface [polypeptide binding]; other site 882884005619 Walker A motif; other site 882884005620 ATP binding site [chemical binding]; other site 882884005621 hydroxycobalamin binding site [chemical binding]; other site 882884005622 Walker B motif; other site 882884005623 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884005624 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 882884005625 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884005626 dimerization interface [polypeptide binding]; other site 882884005627 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 882884005628 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 882884005629 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884005630 CoA-ligase; Region: Ligase_CoA; pfam00549 882884005631 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 882884005632 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 882884005633 CoA-ligase; Region: Ligase_CoA; pfam00549 882884005634 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 882884005635 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 882884005636 E3 interaction surface; other site 882884005637 lipoyl attachment site [posttranslational modification]; other site 882884005638 e3 binding domain; Region: E3_binding; pfam02817 882884005639 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 882884005640 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 882884005641 TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of 2-oxoglutarate to succinyl-CoA and carbon dioxide, a key reaction of...; Region: TPP_E1_OGDC_like; cd02016 882884005642 TPP-binding site [chemical binding]; other site 882884005643 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 882884005644 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 882884005645 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 882884005646 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 882884005647 domain; Region: Succ_DH_flav_C; pfam02910 882884005648 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 882884005649 SdhC subunit interface [polypeptide binding]; other site 882884005650 proximal heme binding site [chemical binding]; other site 882884005651 cardiolipin binding site; other site 882884005652 Iron-sulfur protein interface; other site 882884005653 proximal quinone binding site [chemical binding]; other site 882884005654 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 882884005655 Iron-sulfur protein interface; other site 882884005656 proximal quinone binding site [chemical binding]; other site 882884005657 SdhD (CybS) interface [polypeptide binding]; other site 882884005658 proximal heme binding site [chemical binding]; other site 882884005659 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 882884005660 dimer interface [polypeptide binding]; other site 882884005661 Citrate synthase; Region: Citrate_synt; pfam00285 882884005662 active site 882884005663 citrylCoA binding site [chemical binding]; other site 882884005664 NADH binding [chemical binding]; other site 882884005665 cationic pore residues; other site 882884005666 oxalacetate/citrate binding site [chemical binding]; other site 882884005667 coenzyme A binding site [chemical binding]; other site 882884005668 catalytic triad [active] 882884005669 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 882884005670 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 882884005671 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 882884005672 endonuclease VIII; Provisional; Region: PRK10445 882884005673 N-terminal domain of Escherichia coli Nei/endonuclease VIII and related DNA glycosylases; Region: EcNei-like_N; cd08965 882884005674 DNA binding site [nucleotide binding] 882884005675 catalytic residue [active] 882884005676 H2TH interface [polypeptide binding]; other site 882884005677 putative catalytic residues [active] 882884005678 intercalation triad [nucleotide binding]; other site 882884005679 substrate specificity determining residue; other site 882884005680 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 882884005681 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 882884005682 LamB/YcsF family; Region: LamB_YcsF; cl00664 882884005683 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 882884005684 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 882884005685 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 882884005686 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 882884005687 Uncharacterized conserved protein [Function unknown]; Region: COG0327 882884005688 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 882884005689 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 882884005690 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 882884005691 putative substrate translocation pore; other site 882884005692 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 882884005693 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 882884005694 DNA photolyase; Region: DNA_photolyase; pfam00875 882884005695 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 882884005696 Protein of unknown function (DUF2931); Region: DUF2931; pfam11153 882884005697 Protein of unknown function (DUF2931); Region: DUF2931; pfam11153 882884005698 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 882884005699 Protein of unknown function (DUF2517); Region: DUF2517; pfam10725 882884005700 K+-transporting ATPase, A chain [Inorganic ion transport and metabolism]; Region: KdpA; cl00903 882884005701 Potassium-transporting ATPase A subunit; Region: KdpA; pfam03814 882884005702 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 882884005703 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 882884005704 K+-transporting ATPase, c chain; Region: KdpC; cl00944 882884005705 sensor protein KdpD; Provisional; Region: PRK10490 882884005706 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 882884005707 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 882884005708 Ligand Binding Site [chemical binding]; other site 882884005709 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 trans-...; Region: HisKA; cd00082 882884005710 dimer interface [polypeptide binding]; other site 882884005711 phosphorylation site [posttranslational modification] 882884005712 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884005713 ATP binding site [chemical binding]; other site 882884005714 Mg2+ binding site [ion binding]; other site 882884005715 G-X-G motif; other site 882884005716 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 882884005717 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884005718 active site 882884005719 phosphorylation site [posttranslational modification] 882884005720 intermolecular recognition site; other site 882884005721 dimerization interface [polypeptide binding]; other site 882884005722 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...; Region: trans_reg_C; cd00383 882884005723 DNA binding site [nucleotide binding] 882884005724 ornithine decarboxylase; Provisional; Region: PRK13578 882884005725 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 882884005726 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and...; Region: Orn_deC_like; cd00615 882884005727 homodimer interface [polypeptide binding]; other site 882884005728 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884005729 catalytic residue [active] 882884005730 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 882884005731 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 882884005732 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 882884005733 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 882884005734 phosphoglucomutase, alpha-D-glucose phosphate-specific; Region: pgm; TIGR01132 882884005735 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 882884005736 active site 882884005737 substrate binding site [chemical binding]; other site 882884005738 metal binding site [ion binding]; metal-binding site 882884005739 SeqA protein; Region: SeqA; cl11470 882884005740 acyl-CoA esterase; Provisional; Region: PRK10673 882884005741 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 882884005742 LexA regulated protein; Provisional; Region: PRK11675 882884005743 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 882884005744 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 882884005745 metal binding site 2 [ion binding]; metal-binding site 882884005746 putative DNA binding helix; other site 882884005747 metal binding site 1 [ion binding]; metal-binding site 882884005748 dimer interface [polypeptide binding]; other site 882884005749 structural Zn2+ binding site [ion binding]; other site 882884005750 tricarballylate utilization protein B; Provisional; Region: PRK15033 882884005751 citrate-proton symporter; Provisional; Region: PRK15075 882884005752 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 882884005753 putative substrate translocation pore; other site 882884005754 outer membrane porin, OprD family; Region: OprD; pfam03573 882884005755 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 882884005756 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 882884005757 active site 882884005758 HIGH motif; other site 882884005759 nucleotide binding site [chemical binding]; other site 882884005760 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 882884005761 KMSKS motif; other site 882884005762 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 882884005763 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 882884005764 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 882884005765 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIB_glc; cd00212 882884005766 active site turn [active] 882884005767 phosphorylation site [posttranslational modification] 882884005768 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_glc; cd00210 882884005769 HPr interaction site; other site 882884005770 glycerol kinase (GK) interaction site [polypeptide binding]; other site 882884005771 active site 882884005772 phosphorylation site [posttranslational modification] 882884005773 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination...; Region: GlcN6P_deaminase; cd01399 882884005774 active site 882884005775 trimer interface [polypeptide binding]; other site 882884005776 allosteric site; other site 882884005777 active site lid [active] 882884005778 hexamer (dimer of trimers) interface [polypeptide binding]; other site 882884005779 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 882884005780 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 882884005781 active site 882884005782 dimer interface [polypeptide binding]; other site 882884005783 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884005784 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 882884005785 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 882884005786 UMP phosphatase; Provisional; Region: PRK10444 882884005787 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 882884005788 active site 882884005789 motif I; other site 882884005790 motif II; other site 882884005791 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 882884005792 asparagine synthetase B; Provisional; Region: asnB; PRK09431 882884005793 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 882884005794 active site 882884005795 dimer interface [polypeptide binding]; other site 882884005796 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...; Region: Asn_Synthase_B_C; cd01991 882884005797 Ligand Binding Site [chemical binding]; other site 882884005798 Molecular Tunnel; other site 882884005799 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 882884005800 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 882884005801 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 882884005802 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 882884005803 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 882884005804 FeS/SAM binding site; other site 882884005805 TRAM domain; Region: TRAM; cl01282 882884005806 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 882884005807 PhoH-like protein; Region: PhoH; cl12134 882884005808 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 882884005809 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 882884005810 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 882884005811 Transporter associated domain; Region: CorC_HlyC; pfam03471 882884005812 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 882884005813 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 882884005814 putative active site [active] 882884005815 catalytic triad [active] 882884005816 putative dimer interface [polypeptide binding]; other site 882884005817 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 882884005818 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...; Region: PBPb; cd00134 882884005819 substrate binding pocket [chemical binding]; other site 882884005820 membrane-bound complex binding site; other site 882884005821 hinge residues; other site 882884005822 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 882884005823 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...; Region: TM_PBP2; cd06261 882884005824 dimer interface [polypeptide binding]; other site 882884005825 conserved gate region; other site 882884005826 putative PBP binding loops; other site 882884005827 ABC-ATPase subunit interface; other site 882884005828 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 882884005829 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...; Region: TM_PBP2; cd06261 882884005830 dimer interface [polypeptide binding]; other site 882884005831 conserved gate region; other site 882884005832 putative PBP binding loops; other site 882884005833 ABC-ATPase subunit interface; other site 882884005834 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 882884005835 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 882884005836 Walker A/P-loop; other site 882884005837 ATP binding site [chemical binding]; other site 882884005838 Q-loop/lid; other site 882884005839 ABC transporter signature motif; other site 882884005840 Walker B; other site 882884005841 D-loop; other site 882884005842 H-loop/switch region; other site 882884005843 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 882884005844 active site 882884005845 tetramer interface [polypeptide binding]; other site 882884005846 hypothetical protein; Provisional; Region: PRK11032 882884005847 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 882884005848 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 882884005849 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 882884005850 HIGH motif; other site 882884005851 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 882884005852 active site 882884005853 KMSKS motif; other site 882884005854 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 882884005855 tRNA binding surface [nucleotide binding]; other site 882884005856 Lipopolysaccharide-assembly; Region: LptE; cl01125 882884005857 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 882884005858 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 882884005859 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 882884005860 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 882884005861 active site 882884005862 (T/H)XGH motif; other site 882884005863 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 882884005864 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 882884005865 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884005866 homodimer interface [polypeptide binding]; other site 882884005867 catalytic residue [active] 882884005868 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 882884005869 catalytic core [active] 882884005870 Domain of unknown function DUF143; Region: DUF143; cl00519 882884005871 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 882884005872 penicillin-binding protein 2; Provisional; Region: PRK10795 882884005873 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 882884005874 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 882884005875 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 882884005876 rare lipoprotein A; Provisional; Region: PRK10672 882884005877 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 882884005878 Sporulation related domain; Region: SPOR; cl10051 882884005879 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 882884005880 Beta-lactamase; Region: Beta-lactamase; cl01009 882884005881 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 882884005882 Protein of unknown function (DUF493); Region: DUF493; cl01102 882884005883 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 882884005884 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 882884005885 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884005886 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 882884005887 substrate binding pocket [chemical binding]; other site 882884005888 dimerization interface [polypeptide binding]; other site 882884005889 lipoyl synthase; Provisional; Region: PRK05481 882884005890 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; cl14056 882884005891 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 882884005892 Predicted amidohydrolase [General function prediction only]; Region: COG0388 882884005893 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_3; cd07581 882884005894 putative active site [active] 882884005895 catalytic triad [active] 882884005896 putative dimer interface [polypeptide binding]; other site 882884005897 CrcB-like protein; Region: CRCB; cl09114 882884005898 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 882884005899 DNA-binding site [nucleotide binding]; DNA binding site 882884005900 RNA-binding motif; other site 882884005901 Antimicrobial peptide resistance and lipid A acylation protein PagP; Region: PagP; cl06181 882884005902 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 882884005903 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 882884005904 two-component response regulator DpiA; Provisional; Region: dpiA; PRK10046 882884005905 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884005906 active site 882884005907 phosphorylation site [posttranslational modification] 882884005908 intermolecular recognition site; other site 882884005909 dimerization interface [polypeptide binding]; other site 882884005910 Transcriptional regulator; Region: CitT; pfam12431 882884005911 sensor histidine kinase DpiB; Provisional; Region: dpiB; PRK15053 882884005912 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 882884005913 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884005914 ATP binding site [chemical binding]; other site 882884005915 Mg2+ binding site [ion binding]; other site 882884005916 G-X-G motif; other site 882884005917 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 882884005918 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 882884005919 putative active site [active] 882884005920 (T/H)XGH motif; other site 882884005921 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 882884005922 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 882884005923 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 882884005924 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; cl01498 882884005925 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 882884005926 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 882884005927 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 882884005928 transmembrane helices; other site 882884005929 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 882884005930 B1 nucleotide binding pocket [chemical binding]; other site 882884005931 B2 nucleotide binding pocket [chemical binding]; other site 882884005932 CAS motifs; other site 882884005933 Active site [active] 882884005934 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 882884005935 C-term; Region: GreA_GreB; pfam01272 882884005936 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 882884005937 NAD binding site [chemical binding]; other site 882884005938 structural Zn binding site [ion binding]; other site 882884005939 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 882884005940 Ligand Binding Site [chemical binding]; other site 882884005941 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl04869 882884005942 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 882884005943 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 882884005944 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These...; Region: MopB_3; cd02766 882884005945 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 882884005946 putative molybdopterin cofactor binding site [chemical binding]; other site 882884005947 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 882884005948 molybdopterin cofactor binding site; other site 882884005949 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 882884005950 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 882884005951 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the...; Region: AhpF_NTD_N; cd02974 882884005952 catalytic residue [active] 882884005953 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 882884005954 catalytic residues [active] 882884005955 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 882884005956 alkyl hydroperoxide reductase subunit C; Provisional; Region: PRK10382 882884005957 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...; Region: PRX_Typ2cys; cd03015 882884005958 dimer interface [polypeptide binding]; other site 882884005959 decamer (pentamer of dimers) interface [polypeptide binding]; other site 882884005960 catalytic triad [active] 882884005961 peroxidatic and resolving cysteines [active] 882884005962 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 882884005963 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...; Region: DsbA_DsbC_DsbG; cd03020 882884005964 dimerization domain [polypeptide binding]; other site 882884005965 dimer interface [polypeptide binding]; other site 882884005966 catalytic residues [active] 882884005967 Transcriptional regulator [Transcription]; Region: LysR; COG0583 882884005968 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884005969 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884005970 dimerization interface [polypeptide binding]; other site 882884005971 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 882884005972 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 882884005973 Active Sites [active] 882884005974 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 882884005975 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 882884005976 ParB-like nuclease domain; Region: ParBc; cl02129 882884005977 methionine aminotransferase; Validated; Region: PRK09082 882884005978 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 882884005979 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884005980 homodimer interface [polypeptide binding]; other site 882884005981 catalytic residue [active] 882884005982 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 882884005983 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 882884005984 putative active site [active] 882884005985 metal binding site [ion binding]; metal-binding site 882884005986 Protein of unknown function (DUF466); Region: DUF466; cl01082 882884005987 Carbon starvation protein CstA; Region: CstA; cl00856 882884005988 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 882884005989 CoenzymeA binding site [chemical binding]; other site 882884005990 subunit interaction site [polypeptide binding]; other site 882884005991 PHB binding site; other site 882884005992 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 882884005993 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 882884005994 putative NAD(P) binding site [chemical binding]; other site 882884005995 active site 882884005996 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in...; Region: isochorismatase; cd01013 882884005997 hydrophobic substrate binding pocket; other site 882884005998 Isochorismatase family; Region: Isochorismatase; pfam00857 882884005999 active site 882884006000 conserved cis-peptide bond; other site 882884006001 Phosphopantetheine attachment site; Region: PP-binding; cl09936 882884006002 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 882884006003 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 882884006004 isochorismate synthase EntC; Provisional; Region: PRK15016 882884006005 chorismate binding enzyme; Region: Chorismate_bind; cl10555 882884006006 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 882884006007 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor...; Region: FhuD; cd01146 882884006008 siderophore binding site; other site 882884006009 enterobactin exporter EntS; Provisional; Region: PRK10489 882884006010 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 882884006011 putative substrate translocation pore; other site 882884006012 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...; Region: TM_ABC_iron-siderophores_like; cd06550 882884006013 ABC-ATPase subunit interface; other site 882884006014 dimer interface [polypeptide binding]; other site 882884006015 putative PBP binding regions; other site 882884006016 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 882884006017 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...; Region: TM_ABC_iron-siderophores_like; cd06550 882884006018 ABC-ATPase subunit interface; other site 882884006019 dimer interface [polypeptide binding]; other site 882884006020 putative PBP binding regions; other site 882884006021 iron-enterobactin transporter ATP-binding protein; Provisional; Region: PRK10253 882884006022 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 882884006023 Walker A/P-loop; other site 882884006024 ATP binding site [chemical binding]; other site 882884006025 Q-loop/lid; other site 882884006026 ABC transporter signature motif; other site 882884006027 Walker B; other site 882884006028 D-loop; other site 882884006029 H-loop/switch region; other site 882884006030 Chain length determinant protein; Region: Wzz; cl01623 882884006031 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 882884006032 Condensation domain; Region: Condensation; cl09290 882884006033 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 882884006034 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 882884006035 Phosphopantetheine attachment site; Region: PP-binding; cl09936 882884006036 MbtH-like protein; Region: MbtH; cl01279 882884006037 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 882884006038 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 882884006039 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 882884006040 outer membrane receptor FepA; Provisional; Region: PRK13524 882884006041 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 882884006042 N-terminal plug; other site 882884006043 ligand-binding site [chemical binding]; other site 882884006044 phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex; Provisional; Region: PRK10251 882884006045 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 882884006046 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 882884006047 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 882884006048 Protein of unknown function (DUF1158); Region: DUF1158; pfam06643 882884006049 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 882884006050 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 882884006051 Protein of unknown function (DUF419); Region: DUF419; cl09948 882884006052 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 882884006053 dimer interface [polypeptide binding]; other site 882884006054 FMN binding site [chemical binding]; other site 882884006055 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...; Region: PTS_IIA_man; cd00006 882884006056 active pocket/dimerization site; other site 882884006057 active site 882884006058 phosphorylation site [posttranslational modification] 882884006059 Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four...; Region: PTS_IIB_man; cd00001 882884006060 active site 882884006061 phosphorylation site [posttranslational modification] 882884006062 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 882884006063 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 882884006064 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 882884006065 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 882884006066 dimer interface [polypeptide binding]; other site 882884006067 active site 882884006068 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 882884006069 dimer interface [polypeptide binding]; other site 882884006070 active site 882884006071 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 882884006072 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS_1; cd05710 882884006073 putative active site [active] 882884006074 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 882884006075 dimer interface [polypeptide binding]; other site 882884006076 active site 882884006077 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 882884006078 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...; Region: AAA; cd00009 882884006079 ATP binding site [chemical binding]; other site 882884006080 Walker B motif; other site 882884006081 arginine finger; other site 882884006082 Transcriptional antiterminator [Transcription]; Region: COG3933 882884006083 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...; Region: PTS_IIA_man; cd00006 882884006084 active pocket/dimerization site; other site 882884006085 active site 882884006086 phosphorylation site [posttranslational modification] 882884006087 PRD domain; Region: PRD; pfam00874 882884006088 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 882884006089 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 882884006090 active site 882884006091 oxyanion hole [active] 882884006092 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 882884006093 catalytic triad [active] 882884006094 Autotransporter beta-domain; Region: Autotransporter; cl02365 882884006095 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 882884006096 Mechanosensitive ion channel; Region: MS_channel; pfam00924 882884006097 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 882884006098 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 882884006099 Protein of unknown function, DUF417; Region: DUF417; cl01162 882884006100 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 882884006101 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK08010 882884006102 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 882884006103 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 882884006104 Cupin domain; Region: Cupin_2; cl09118 882884006105 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 882884006106 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882884006107 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 882884006108 Autotransporter beta-domain; Region: Autotransporter; cl02365 882884006109 Lyase, N terminal; Region: Lyase_N; pfam09092 882884006110 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues...; Region: GAG_Lyase; cd01083 882884006111 substrate binding site [chemical binding]; other site 882884006112 catalytic residues [active] 882884006113 CdtB, the catalytic DNase I-like subunit of cytolethal distending toxin (CDT) protein; Region: CdtB; cd09081 882884006114 putative catalytic site [active] 882884006115 heterotrimer interface [polypeptide binding]; other site 882884006116 CdtC interface [polypeptide binding]; other site 882884006117 CdtA interface [polypeptide binding]; other site 882884006118 putative metal binding site [ion binding]; other site 882884006119 putative phosphate binding site [ion binding]; other site 882884006120 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 882884006121 Predicted lysozyme (DUF847); Region: DUF847; pfam05838 882884006122 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 882884006123 Pertussis toxin, subunit 1; Region: Pertussis_S1; cl03779 882884006124 subtilase cytotoxin subunit B-like protein; Provisional; Region: PRK15265; cl14664 882884006125 Integrase core domain; Region: rve; cl01316 882884006126 pathogenicity island 2 effector protein SseI; Provisional; Region: PRK15372 882884006127 pathogenicity island 2 effector protein SseI; Provisional; Region: PRK15372 882884006128 Protein of unknown function (DUF551); Region: DUF551; pfam04448 882884006129 Phage-related protein, tail component [Function unknown]; Region: COG4733 882884006130 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 882884006131 Protein of unknown function (DUF1441); Region: DUF1441; pfam07278 882884006132 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 882884006133 putative lipoprotein/autotransporter domain-containing protein; Provisional; Region: PRK14849 882884006134 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43...; Region: PL2_Passenger_AT; cd01344 882884006135 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 882884006136 Autotransporter beta-domain; Region: Autotransporter; cl02365 882884006137 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases...; Region: lysozyme_like; cl00222 882884006138 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 882884006139 Fimbrial protein; Region: Fimbrial; cl01416 882884006140 outer membrane usher protein FimD; Provisional; Region: PRK15198 882884006141 pilin outer membrane usher protein SafC; Provisional; Region: PRK15223; cl14650 882884006142 fimbrial chaperone protein FimC; Provisional; Region: PRK15195 882884006143 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 882884006144 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 882884006145 Fimbrial protein; Region: Fimbrial; cl01416 882884006146 Fimbrial protein; Region: Fimbrial; cl01416 882884006147 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 882884006148 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 882884006149 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 882884006150 homodimer interface [polypeptide binding]; other site 882884006151 NADP binding site [chemical binding]; other site 882884006152 substrate binding site [chemical binding]; other site 882884006153 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 882884006154 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 882884006155 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 882884006156 active site 882884006157 HIGH motif; other site 882884006158 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 882884006159 KMSKS motif; other site 882884006160 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 882884006161 tRNA binding surface [nucleotide binding]; other site 882884006162 anticodon binding site; other site 882884006163 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 882884006164 substrate binding site [chemical binding]; other site 882884006165 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 882884006166 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 882884006167 putative active site [active] 882884006168 putative metal binding site [ion binding]; other site 882884006169 AIR carboxylase; Region: AIRC; cl00310 882884006170 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 882884006171 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 882884006172 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 882884006173 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 882884006174 active site residue [active] 882884006175 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...; Region: TM_PBP2; cd06261 882884006176 dimer interface [polypeptide binding]; other site 882884006177 conserved gate region; other site 882884006178 ABC-ATPase subunit interface; other site 882884006179 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 882884006180 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein; Region: ABC_MetN_methionine_transporter; cd03258 882884006181 Walker A/P-loop; other site 882884006182 ATP binding site [chemical binding]; other site 882884006183 Q-loop/lid; other site 882884006184 ABC transporter signature motif; other site 882884006185 Walker B; other site 882884006186 D-loop; other site 882884006187 H-loop/switch region; other site 882884006188 NIL domain; Region: NIL; pfam09383 882884006189 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884006190 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 882884006191 FtsX-like permease family; Region: FtsX; pfam02687 882884006192 FtsX-like permease family; Region: FtsX; pfam02687 882884006193 putative ABC transporter ATP-binding protein YbbA; Provisional; Region: PRK10584 882884006194 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 882884006195 Walker A/P-loop; other site 882884006196 ATP binding site [chemical binding]; other site 882884006197 Q-loop/lid; other site 882884006198 ABC transporter signature motif; other site 882884006199 Walker B; other site 882884006200 D-loop; other site 882884006201 H-loop/switch region; other site 882884006202 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 882884006203 active site 882884006204 catalytic triad [active] 882884006205 oxyanion hole [active] 882884006206 switch loop; other site 882884006207 short chain dehydrogenase; Provisional; Region: PRK05693 882884006208 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 882884006209 NADP binding site [chemical binding]; other site 882884006210 active site 882884006211 steroid binding site; other site 882884006212 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 882884006213 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 882884006214 Uncharacterised protein family (UPF0014); Region: UPF0014; cl00424 882884006215 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 882884006216 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 882884006217 Walker A/P-loop; other site 882884006218 ATP binding site [chemical binding]; other site 882884006219 Q-loop/lid; other site 882884006220 ABC transporter signature motif; other site 882884006221 Walker B; other site 882884006222 D-loop; other site 882884006223 H-loop/switch region; other site 882884006224 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 882884006225 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 882884006226 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 882884006227 DNA-binding transcriptional regulator CueR; Provisional; Region: PRK10227 882884006228 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 882884006229 DNA binding residues [nucleotide binding] 882884006230 dimer interface [polypeptide binding]; other site 882884006231 copper binding site [ion binding]; other site 882884006232 copper exporting ATPase; Provisional; Region: copA; PRK10671 882884006233 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 882884006234 metal-binding site [ion binding] 882884006235 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 882884006236 metal-binding site [ion binding] 882884006237 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 882884006238 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 882884006239 motif II; other site 882884006240 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 882884006241 TraB family; Region: TraB; cl12050 882884006242 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 882884006243 putative deacylase active site [active] 882884006244 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 882884006245 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 882884006246 active site 882884006247 metal binding site [ion binding]; metal-binding site 882884006248 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 882884006249 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 882884006250 Major Facilitator Superfamily; Region: MFS_1; pfam07690 882884006251 putative substrate translocation pore; other site 882884006252 putative cation:proton antiport protein; Provisional; Region: PRK10669 882884006253 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 882884006254 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884006255 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase, 2-...; Region: ribokinase_pfkB_like; cl00192 882884006256 acetyl esterase; Provisional; Region: PRK10162 882884006257 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 882884006258 ferrochelatase; Reviewed; Region: hemH; PRK00035 882884006259 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 882884006260 C-terminal domain interface [polypeptide binding]; other site 882884006261 active site 882884006262 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 882884006263 active site 882884006264 N-terminal domain interface [polypeptide binding]; other site 882884006265 adenylate kinase; Reviewed; Region: adk; PRK00279 882884006266 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 882884006267 AMP-binding site [chemical binding]; other site 882884006268 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 882884006269 heat shock protein 90; Provisional; Region: PRK05218 882884006270 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884006271 ATP binding site [chemical binding]; other site 882884006272 Mg2+ binding site [ion binding]; other site 882884006273 G-X-G motif; other site 882884006274 recombination protein RecR; Reviewed; Region: recR; PRK00076 882884006275 RecR protein; Region: RecR; pfam02132 882884006276 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 882884006277 putative active site [active] 882884006278 putative metal-binding site [ion binding]; other site 882884006279 tetramer interface [polypeptide binding]; other site 882884006280 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 882884006281 Dnax ribosomal frameshifting element 882884006282 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 882884006283 Protein of unknown function (DUF454); Region: DUF454; cl01063 882884006284 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 882884006285 Protein of unknown function (DUF2496); Region: DUF2496; cl11670 882884006286 hypothetical protein; Provisional; Region: PRK11281 882884006287 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 882884006288 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 882884006289 Mechanosensitive ion channel; Region: MS_channel; pfam00924 882884006290 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 882884006291 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 882884006292 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 882884006293 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 882884006294 Animal heme peroxidases and related proteins; Region: An_peroxidase_like; cl14561 882884006295 substrate binding site [chemical binding]; other site 882884006296 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 882884006297 Protein export membrane protein; Region: SecD_SecF; cl14618 882884006298 Protein export membrane protein; Region: SecD_SecF; cl14618 882884006299 Biofilm formation regulator YbaJ; Region: YbaJ; cl11675 882884006300 Haemolysin expression modulating protein; Region: HHA; cl11501 882884006301 maltose O-acetyltransferase; Provisional; Region: PRK10092 882884006302 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 882884006303 active site 882884006304 substrate binding site [chemical binding]; other site 882884006305 trimer interface [polypeptide binding]; other site 882884006306 CoA binding site [chemical binding]; other site 882884006307 Extracytoplasmic function sigma factor YlaC; Region: YlaC; pfam10777 882884006308 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 882884006309 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 882884006310 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 882884006311 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 882884006312 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 882884006313 DNA binding site [nucleotide binding] 882884006314 active site 882884006315 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 882884006316 acyl-CoA thioesterase II; Provisional; Region: PRK10526 882884006317 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 882884006318 active site 882884006319 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 882884006320 catalytic triad [active] 882884006321 dimer interface [polypeptide binding]; other site 882884006322 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 882884006323 Nitrogen regulatory protein P-II; Region: P-II; cl00412 882884006324 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 882884006325 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 882884006326 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884006327 Walker A/P-loop; other site 882884006328 ATP binding site [chemical binding]; other site 882884006329 Q-loop/lid; other site 882884006330 ABC transporter signature motif; other site 882884006331 Walker B; other site 882884006332 D-loop; other site 882884006333 H-loop/switch region; other site 882884006334 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 882884006335 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 882884006336 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884006337 Walker A/P-loop; other site 882884006338 ATP binding site [chemical binding]; other site 882884006339 Q-loop/lid; other site 882884006340 ABC transporter signature motif; other site 882884006341 Walker B; other site 882884006342 D-loop; other site 882884006343 H-loop/switch region; other site 882884006344 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 882884006345 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884006346 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 882884006347 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD)...; Region: Trp-synth-beta_II; cl00342 882884006348 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 882884006349 catalytic residue [active] 882884006350 thiamin pyrimidine pyrophosphate hydrolase; Provisional; Region: PRK15126 882884006351 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 882884006352 active site 882884006353 motif I; other site 882884006354 motif II; other site 882884006355 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 882884006356 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 882884006357 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 882884006358 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 882884006359 Ligand Binding Site [chemical binding]; other site 882884006360 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...; Region: 4HBT; cd00586 882884006361 active site 882884006362 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 882884006363 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 882884006364 periplasmic folding chaperone; Provisional; Region: PRK10788 882884006365 SurA N-terminal domain; Region: SurA_N; pfam09312 882884006366 PPIC-type PPIASE domain; Region: Rotamase; cl08278 882884006367 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 higher-...; Region: HU_IHF; cd00591 882884006368 IHF dimer interface [polypeptide binding]; other site 882884006369 IHF - DNA interface [nucleotide binding]; other site 882884006370 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 882884006371 Found in ATP-dependent protease La (LON); Region: LON; cl01056 882884006372 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...; Region: AAA; cd00009 882884006373 Walker A motif; other site 882884006374 ATP binding site [chemical binding]; other site 882884006375 Walker B motif; other site 882884006376 arginine finger; other site 882884006377 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 882884006378 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 882884006379 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 882884006380 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...; Region: AAA; cd00009 882884006381 Walker A motif; other site 882884006382 ATP binding site [chemical binding]; other site 882884006383 Walker B motif; other site 882884006384 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 882884006385 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 882884006386 oligomer interface [polypeptide binding]; other site 882884006387 active site residues [active] 882884006388 trigger factor; Provisional; Region: tig; PRK01490 882884006389 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 882884006390 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 882884006391 BolA-like protein; Region: BolA; cl00386 882884006392 hypothetical protein; Provisional; Region: PRK11627 882884006393 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 882884006394 muropeptide transporter; Reviewed; Region: ampG; PRK11902 882884006395 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 882884006396 putative substrate translocation pore; other site 882884006397 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 882884006398 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 882884006399 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 882884006400 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 882884006401 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 882884006402 D-pathway; other site 882884006403 Putative ubiquinol binding site [chemical binding]; other site 882884006404 Low-spin heme (heme b) binding site [chemical binding]; other site 882884006405 Putative water exit pathway; other site 882884006406 Binuclear center (heme o3/CuB) [ion binding]; other site 882884006407 K-pathway; other site 882884006408 Putative proton exit pathway; other site 882884006409 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 882884006410 Subunit I/III interface [polypeptide binding]; other site 882884006411 Subunit III/IV interface [polypeptide binding]; other site 882884006412 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 882884006413 UbiA prenyltransferase family; Region: UbiA; cl00337 882884006414 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 882884006415 Major Facilitator Superfamily; Region: MFS_1; pfam07690 882884006416 putative substrate translocation pore; other site 882884006417 Protein of unknown function (DUF520); Region: DUF520; cl00723 882884006418 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 882884006419 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884006420 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 882884006421 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 882884006422 conserved cys residue [active] 882884006423 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 882884006424 THUMP domain; Region: THUMP; cl12076 882884006425 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 882884006426 Ligand Binding Site [chemical binding]; other site 882884006427 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 882884006428 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 882884006429 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 882884006430 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 882884006431 substrate binding pocket [chemical binding]; other site 882884006432 chain length determination region; other site 882884006433 substrate-Mg2+ binding site; other site 882884006434 catalytic residues [active] 882884006435 aspartate-rich region 1; other site 882884006436 active site lid residues [active] 882884006437 aspartate-rich region 2; other site 882884006438 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 882884006439 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 with important pharmaceutical activity. DXS...; Region: TPP_DXS; cd02007 882884006440 TPP-binding site; other site 882884006441 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 882884006442 PYR/PP interface [polypeptide binding]; other site 882884006443 dimer interface [polypeptide binding]; other site 882884006444 TPP binding site [chemical binding]; other site 882884006445 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 882884006446 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 882884006447 tetramer interfaces [polypeptide binding]; other site 882884006448 binuclear metal-binding site [ion binding]; other site 882884006449 thiamine monophosphate kinase; Provisional; Region: PRK05731 882884006450 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 882884006451 ATP binding site [chemical binding]; other site 882884006452 dimerization interface [polypeptide binding]; other site 882884006453 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 882884006454 putative RNA binding site [nucleotide binding]; other site 882884006455 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 882884006456 homopentamer interface [polypeptide binding]; other site 882884006457 active site 882884006458 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 882884006459 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 882884006460 catalytic motif [active] 882884006461 Zn binding site [ion binding]; other site 882884006462 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5,10-...; Region: DHFR; cl00161 882884006463 ATP cone domain; Region: ATP-cone; pfam03477 882884006464 Protein of unknown function (DUF3251); Region: DUF3251; cl08186 882884006465 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 882884006466 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...; Region: HNHc; cl00083 882884006467 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 882884006468 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 882884006469 Protein export membrane protein; Region: SecD_SecF; cl14618 882884006470 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 882884006471 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 882884006472 Protein export membrane protein; Region: SecD_SecF; cl14618 882884006473 Preprotein translocase subunit; Region: YajC; cl00806 882884006474 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 882884006475 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 882884006476 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 882884006477 Protein of unknown function, DUF479; Region: DUF479; cl01203 882884006478 peroxidase; Provisional; Region: PRK15000 882884006479 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...; Region: PRX_Typ2cys; cd03015 882884006480 dimer interface [polypeptide binding]; other site 882884006481 decamer (pentamer of dimers) interface [polypeptide binding]; other site 882884006482 catalytic triad [active] 882884006483 peroxidatic and resolving cysteines [active] 882884006484 maltodextrin glucosidase; Provisional; Region: PRK10785 882884006485 CD and pullulan-degrading enzymes N-terminus domain. Members of this subgroup include: Cyclomaltodextrinase (CDase), maltogenic amylase, and neopullulanase all of which are capable of hydrolyzing all or two of the following three types of substrates:...; Region: CD_pullulan_degrading_enzymes_N_term; cd02857 882884006486 homodimer; other site 882884006487 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 882884006488 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 882884006489 Amino acid permease; Region: AA_permease; pfam00324 882884006490 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 882884006491 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 882884006492 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 882884006493 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 882884006494 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 trans-...; Region: HisKA; cd00082 882884006495 dimer interface [polypeptide binding]; other site 882884006496 phosphorylation site [posttranslational modification] 882884006497 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884006498 ATP binding site [chemical binding]; other site 882884006499 Mg2+ binding site [ion binding]; other site 882884006500 G-X-G motif; other site 882884006501 transcriptional regulator PhoB; Provisional; Region: PRK10161 882884006502 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884006503 active site 882884006504 phosphorylation site [posttranslational modification] 882884006505 intermolecular recognition site; other site 882884006506 dimerization interface [polypeptide binding]; other site 882884006507 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...; Region: trans_reg_C; cd00383 882884006508 DNA binding site [nucleotide binding] 882884006509 exonuclease subunit SbcD; Provisional; Region: PRK10966 882884006510 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 882884006511 active site 882884006512 metal binding site [ion binding]; metal-binding site 882884006513 DNA binding site [nucleotide binding] 882884006514 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 882884006515 exonuclease subunit SbcC; Provisional; Region: PRK10246 882884006516 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884006517 Walker A/P-loop; other site 882884006518 ATP binding site [chemical binding]; other site 882884006519 Q-loop/lid; other site 882884006520 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884006521 ABC transporter signature motif; other site 882884006522 Walker B; other site 882884006523 D-loop; other site 882884006524 H-loop/switch region; other site 882884006525 MFS transport protein AraJ; Provisional; Region: PRK10091 882884006526 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 882884006527 putative substrate translocation pore; other site 882884006528 fructokinase; Reviewed; Region: PRK09557 882884006529 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 882884006530 Putative exonuclease, RdgC; Region: RdgC; cl01122 882884006531 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 882884006532 AroM protein; Region: AroM; cl06364 882884006533 hypothetical protein; Provisional; Region: PRK10380 882884006534 shikimate kinase; Reviewed; Region: aroK; PRK00131 882884006535 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...; Region: SK; cd00464 882884006536 ADP binding site [chemical binding]; other site 882884006537 magnesium binding site [ion binding]; other site 882884006538 putative shikimate binding site; other site 882884006539 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 882884006540 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 882884006541 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884006542 psiF repeat; Region: PsiF_repeat; pfam07769 882884006543 psiF repeat; Region: PsiF_repeat; pfam07769 882884006544 Sigma-S stabilisation anti-adaptor protein; Region: Anti-adapt_IraP; cl11681 882884006545 drug efflux system protein MdtG; Provisional; Region: PRK09874 882884006546 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 882884006547 putative substrate translocation pore; other site 882884006548 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 882884006549 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 882884006550 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 882884006551 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 882884006552 Protein of unknown function (DUF2754); Region: DUF2754; pfam10953 882884006553 Protein of unknown function (DUF2755); Region: DUF2755; pfam10954 882884006554 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 882884006555 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 882884006556 Beta-lactamase; Region: Beta-lactamase; cl01009 882884006557 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 882884006558 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 882884006559 dimer interface [polypeptide binding]; other site 882884006560 active site 882884006561 Schiff base residues; other site 882884006562 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 882884006563 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 882884006564 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 882884006565 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 882884006566 2-methylcitrate dehydratase; Region: prpD; TIGR02330 882884006567 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 882884006568 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (...; Region: Ec2MCS_like_1; cd06117 882884006569 dimer interface [polypeptide binding]; other site 882884006570 active site 882884006571 citrylCoA binding site [chemical binding]; other site 882884006572 oxalacetate/citrate binding site [chemical binding]; other site 882884006573 coenzyme A binding site [chemical binding]; other site 882884006574 catalytic triad [active] 882884006575 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 882884006576 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 882884006577 tetramer interface [polypeptide binding]; other site 882884006578 active site 882884006579 Mg2+/Mn2+ binding site [ion binding]; other site 882884006580 propionate catabolism operon regulatory protein PrpR; Provisional; Region: PRK15424 882884006581 Propionate catabolism activator; Region: PrpR_N; pfam06506 882884006582 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...; Region: AAA; cd00009 882884006583 Walker A motif; other site 882884006584 ATP binding site [chemical binding]; other site 882884006585 Walker B motif; other site 882884006586 arginine finger; other site 882884006587 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 882884006588 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 882884006589 LysE type translocator; Region: LysE; cl00565 882884006590 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 882884006591 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 882884006592 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 882884006593 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 882884006594 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 882884006595 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 882884006596 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; cl14882 882884006597 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; cl14882 882884006598 VRR-NUC domain; Region: VRR_NUC; pfam08774 882884006599 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 882884006600 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 882884006601 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 882884006602 putative sialic acid transporter; Region: 2A0112; TIGR00891 882884006603 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 882884006604 putative substrate translocation pore; other site 882884006605 Transcriptional regulator [Transcription]; Region: LysR; COG0583 882884006606 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884006607 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 882884006608 putative dimerization interface [polypeptide binding]; other site 882884006609 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 882884006610 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 882884006611 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 882884006612 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 882884006613 CoA-transferase family III; Region: CoA_transf_3; cl00778 882884006614 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 882884006615 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 882884006616 active site 882884006617 Uncharacterized conserved protein [Function unknown]; Region: COG3777 882884006618 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 882884006619 active site 2 [active] 882884006620 active site 1 [active] 882884006621 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 882884006622 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 882884006623 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 882884006624 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 882884006625 Ligand binding site [chemical binding]; other site 882884006626 Integrase core domain; Region: rve; cl01316 882884006627 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; cl01116 882884006628 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 882884006629 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 882884006630 Integrase core domain; Region: rve; cl01316 882884006631 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 882884006632 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 882884006633 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 882884006634 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 882884006635 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 882884006636 Peptidase family M23; Region: Peptidase_M23; pfam01551 882884006637 Protein of unknown function (DUF3289); Region: DUF3289; cl11840 882884006638 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 882884006639 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 882884006640 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 882884006641 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 882884006642 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 882884006643 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 882884006644 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 882884006645 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 882884006646 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 882884006647 S-type Pyocin; Region: Pyocin_S; pfam06958 882884006648 DNase/tRNase domain of colicin-like bacteriocin; Region: Colicin-DNase; pfam12639 882884006649 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 882884006650 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 882884006651 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 882884006652 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 882884006653 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 882884006654 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 882884006655 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 882884006656 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis...; Region: PASTA_pknB; cd06577 882884006657 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; cl01910 882884006658 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 882884006659 binding surface 882884006660 TPR motif; other site 882884006661 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 882884006662 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 882884006663 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 882884006664 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 882884006665 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases...; Region: lysozyme_like; cl00222 882884006666 Integrase core domain; Region: rve; cl01316 882884006667 Uncharacterized conserved protein [Function unknown]; Region: COG4104 882884006668 Peptidase family M23; Region: Peptidase_M23; pfam01551 882884006669 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases...; Region: lysozyme_like; cl00222 882884006670 catalytic residue [active] 882884006671 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 882884006672 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 882884006673 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 882884006674 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 882884006675 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...; Region: AAA; cd00009 882884006676 Walker A motif; other site 882884006677 ATP binding site [chemical binding]; other site 882884006678 Walker B motif; other site 882884006679 arginine finger; other site 882884006680 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...; Region: AAA; cd00009 882884006681 Walker A motif; other site 882884006682 ATP binding site [chemical binding]; other site 882884006683 Walker B motif; other site 882884006684 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 882884006685 Protein of unknown function (DUF796); Region: DUF796; cl01226 882884006686 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 882884006687 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 882884006688 ligand binding site [chemical binding]; other site 882884006689 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 882884006690 Bacterial protein of unknown function (DUF876); Region: DUF876; cl01406 882884006691 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 882884006692 Protein of unknown function (DUF877); Region: DUF877; pfam05943 882884006693 Protein of unknown function (DUF770); Region: DUF770; cl01402 882884006694 Integrase core domain; Region: rve; cl01316 882884006695 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; cl01116 882884006696 Predicted O-acyltransferase [General function prediction only]; Region: COG3274; cl00792 882884006697 Head binding; Region: Head_binding; pfam09008 882884006698 Protein of unknown function (DUF2824); Region: DUF2824; cl10279 882884006699 Protein of unknown function (DUF812); Region: DUF812; pfam05667 882884006700 Phage stabilisation protein; Region: Phage_stabilise; pfam11134 882884006701 P22 tail accessory factor; Region: P22_Tail-4; pfam11650 882884006702 P22 coat protein - gene protein 5; Region: P22_CoatProtein; cl10302 882884006703 Bacteriophage, scaffolding protein; Region: Phage-scaffold; pfam09306 882884006704 Terminase-like family; Region: Terminase_6; pfam03237 882884006705 Bacteriophage terminase large (ATPase) subunit and inactivated derivatives [General function prediction only]; Region: COG5565 882884006706 hypothetical protein; Region: PHA00781 882884006707 Protein of unknown function (DUF2560); Region: DUF2560; cl10280 882884006708 T5orf172 domain; Region: T5orf172; pfam10544 882884006709 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 882884006710 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 882884006711 catalytic residues [active] 882884006712 Phage holin family (Lysis protein S); Region: Phage_holin_3; cl04938 882884006713 Antitermination protein; Region: Antiterm; pfam03589 882884006714 chaperone protein DnaJ; Provisional; Region: PRK14291 882884006715 Antitermination protein; Region: Antiterm; pfam03589 882884006716 NinB protein; Region: NinB; cl14671 882884006717 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 882884006718 HK022 subfamily; Region: phage_DnaB; TIGR03600 882884006719 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884006720 Walker A motif; other site 882884006721 ATP binding site [chemical binding]; other site 882884006722 Walker B motif; other site 882884006723 Protein of unknown function (DUF2740); Region: DUF2740; pfam10872 882884006724 Bacteriophage CII protein; Region: Phage_CII; pfam05269 882884006725 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 882884006726 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 882884006727 Predicted transcriptional regulator [Transcription]; Region: COG2932 882884006728 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 (...; Region: S24_LexA-like; cd06529 882884006729 Catalytic site [active] 882884006730 P63C domain; Region: P63C; pfam10546 882884006731 hypothetical protein; Provisional; Region: PRK09946 882884006732 hypothetical protein; Provisional; Region: PRK09946 882884006733 Bacteriophage lambda Kil protein; Region: Lambda_Kil; pfam06301 882884006734 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; cl01936 882884006735 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...; Region: Sigma70_r4; cl01055 882884006736 Protein of unknown function (DUF2856); Region: DUF2856; pfam11043 882884006737 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...; Region: HNHc; cl00083 882884006738 DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial and phage integrases, including those similar to phage P22-like integrases, DLP12 and APSE-1; Region: INT_P22_C; cd01192 882884006739 Phage integrase family; Region: Phage_integrase; pfam00589 882884006740 Int/Topo IB signature motif; other site 882884006741 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 882884006742 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 882884006743 putative catalytic cysteine [active] 882884006744 gamma-glutamyl kinase; Provisional; Region: PRK05429 882884006745 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 882884006746 nucleotide binding site [chemical binding]; other site 882884006747 homotetrameric interface [polypeptide binding]; other site 882884006748 putative phosphate binding site [ion binding]; other site 882884006749 putative allosteric binding site; other site 882884006750 PUA domain; Region: PUA; cl00607 882884006751 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface...; Region: gram_neg_porins; cd00342 882884006752 trimer interface [polypeptide binding]; other site 882884006753 eyelet of channel; other site 882884006754 Transcriptional regulator Crl; Region: Crl; cl11653 882884006755 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 882884006756 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl01208 882884006757 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 882884006758 aminoacyl-histidine dipeptidase; Region: aa-his-dipept; TIGR01893 882884006759 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 882884006760 metal binding site [ion binding]; metal-binding site 882884006761 dimer interface [polypeptide binding]; other site 882884006762 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 882884006763 active site 882884006764 DNA polymerase IV; Validated; Region: PRK02406 882884006765 DNA binding site [nucleotide binding] 882884006766 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 882884006767 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 882884006768 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 882884006769 putative active site [active] 882884006770 putative dimer interface [polypeptide binding]; other site 882884006771 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 882884006772 dimer interface [polypeptide binding]; other site 882884006773 active site 882884006774 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 882884006775 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 882884006776 active site 882884006777 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 882884006778 Predicted amidohydrolase [General function prediction only]; Region: COG0388 882884006779 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 882884006780 putative active site [active] 882884006781 catalytic triad [active] 882884006782 multimer interface [polypeptide binding]; other site 882884006783 dimer interface [polypeptide binding]; other site 882884006784 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 882884006785 dimer interface [polypeptide binding]; other site 882884006786 Surface antigen; Region: Surface_Ag_2; cl01155 882884006787 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 882884006788 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 882884006789 ImpA domain protein; Region: DUF3702; pfam12486 882884006790 T5orf172 domain; Region: T5orf172; pfam10544 882884006791 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 882884006792 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 882884006793 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 882884006794 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 882884006795 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 882884006796 Protein of unknown function (DUF805); Region: DUF805; cl01224 882884006797 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 882884006798 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 882884006799 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 882884006800 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 882884006801 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 882884006802 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 882884006803 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 882884006804 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 882884006805 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 882884006806 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 882884006807 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 882884006808 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 882884006809 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...; Region: AAA; cd00009 882884006810 Walker A motif; other site 882884006811 ATP binding site [chemical binding]; other site 882884006812 Walker B motif; other site 882884006813 arginine finger; other site 882884006814 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...; Region: AAA; cd00009 882884006815 Walker A motif; other site 882884006816 ATP binding site [chemical binding]; other site 882884006817 Walker B motif; other site 882884006818 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 882884006819 Protein of unknown function (DUF796); Region: DUF796; cl01226 882884006820 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 882884006821 ligand binding site [chemical binding]; other site 882884006822 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 882884006823 Bacterial protein of unknown function (DUF876); Region: DUF876; cl01406 882884006824 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 882884006825 Protein of unknown function (DUF877); Region: DUF877; pfam05943 882884006826 Protein of unknown function (DUF770); Region: DUF770; cl01402 882884006827 Protein of unknown function (DUF2913); Region: DUF2913; pfam11140 882884006828 Proteobacterial; Region: dnaQ_proteo; TIGR01406 882884006829 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 882884006830 active site 882884006831 substrate binding site [chemical binding]; other site 882884006832 catalytic site [active] 882884006833 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 882884006834 RNA/DNA hybrid binding site [nucleotide binding]; other site 882884006835 active site 882884006836 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 882884006837 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 882884006838 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 882884006839 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 882884006840 N-acetyl-D-glucosamine binding site [chemical binding]; other site 882884006841 catalytic residue [active] 882884006842 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 882884006843 putative peptidoglycan binding site; other site 882884006844 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 882884006845 putative peptidoglycan binding site; other site 882884006846 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 882884006847 putative catalytic site [active] 882884006848 putative metal binding site [ion binding]; other site 882884006849 putative phosphate binding site [ion binding]; other site 882884006850 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 882884006851 putative catalytic site [active] 882884006852 putative phosphate binding site [ion binding]; other site 882884006853 putative metal binding site [ion binding]; other site 882884006854 Transcriptional regulator [Transcription]; Region: LysR; COG0583 882884006855 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884006856 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 882884006857 putative effector binding pocket; other site 882884006858 dimerization interface [polypeptide binding]; other site 882884006859 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 882884006860 active site 882884006861 motif I; other site 882884006862 motif II; other site 882884006863 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 882884006864 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 882884006865 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein; Region: ABC_MetN_methionine_transporter; cd03258 882884006866 Walker A/P-loop; other site 882884006867 ATP binding site [chemical binding]; other site 882884006868 Q-loop/lid; other site 882884006869 ABC transporter signature motif; other site 882884006870 Walker B; other site 882884006871 D-loop; other site 882884006872 H-loop/switch region; other site 882884006873 NIL domain; Region: NIL; pfam09383 882884006874 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...; Region: TM_PBP2; cd06261 882884006875 dimer interface [polypeptide binding]; other site 882884006876 conserved gate region; other site 882884006877 ABC-ATPase subunit interface; other site 882884006878 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884006879 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 882884006880 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 882884006881 homodimer interaction site [polypeptide binding]; other site 882884006882 cofactor binding site; other site 882884006883 prolyl-tRNA synthetase; Provisional; Region: PRK09194 882884006884 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation...; Region: ProRS_core_prok; cd00779 882884006885 dimer interface [polypeptide binding]; other site 882884006886 motif 1; other site 882884006887 active site 882884006888 motif 2; other site 882884006889 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 single-...; Region: ProRS-INS; cd04334 882884006890 putative deacylase active site [active] 882884006891 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 882884006892 active site 882884006893 motif 3; other site 882884006894 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-...; Region: ProRS_anticodon_short; cd00861 882884006895 anticodon binding site; other site 882884006896 Uncharacterized lipoprotein NlpE involved in copper resistance; Region: NlpE; cl01138 882884006897 RF-1 domain; Region: RF-1; cl02875 882884006898 YaeQ protein; Region: YaeQ; cl01913 882884006899 Uncharacterised protein family (UPF0253); Region: UPF0253; cl11640 882884006900 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; cl09210 882884006901 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 882884006902 TilS substrate binding domain; Region: TilS; pfam09179 882884006903 B3/4 domain; Region: B3_4; cl11458 882884006904 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 882884006905 putative metal binding site [ion binding]; other site 882884006906 lysine decarboxylase LdcC; Provisional; Region: PRK15399 882884006907 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 882884006908 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and...; Region: Orn_deC_like; cd00615 882884006909 homodimer interface [polypeptide binding]; other site 882884006910 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884006911 catalytic residue [active] 882884006912 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 882884006913 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 882884006914 Glycoside hydrolase family 19 chitinase domain. Chitinases are enzymes that catalyze the hydrolysis of the beta-1,4-N-acetyl-D-glucosamine linkages in chitin polymers. Family 19 chitinases are found primarily in plants (classes I, III, and IV), but...; Region: chitinase_glyco_hydro_19; cd00325 882884006915 putative sugar binding site [chemical binding]; other site 882884006916 catalytic residues [active] 882884006917 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl14635 882884006918 N-acetylglucosamine-binding protein A; Reviewed; Region: PRK13211 882884006919 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 882884006920 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 882884006921 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 882884006922 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 882884006923 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...; Region: DnaE_OBF; cd04485 882884006924 generic binding surface II; other site 882884006925 generic binding surface I; other site 882884006926 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 882884006927 RNA/DNA hybrid binding site [nucleotide binding]; other site 882884006928 active site 882884006929 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 882884006930 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 882884006931 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 882884006932 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...; Region: LbH_UDP-GlcNAc_AT; cd03351 882884006933 active site 882884006934 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 882884006935 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 882884006936 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 882884006937 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-2,3-...; Region: LbH_LpxD; cd03352 882884006938 trimer interface [polypeptide binding]; other site 882884006939 active site 882884006940 UDP-GlcNAc binding site [chemical binding]; other site 882884006941 lipid binding site [chemical binding]; lipid-binding site 882884006942 Outer membrane protein (OmpH-like); Region: OmpH; cl08146 882884006943 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 882884006944 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 882884006945 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 882884006946 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 882884006947 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 882884006948 Surface antigen; Region: Bac_surface_Ag; cl03097 882884006949 zinc metallopeptidase RseP; Provisional; Region: PRK10779 882884006950 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 882884006951 active site 882884006952 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...; Region: PDZ_metalloprotease; cd00989 882884006953 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...; Region: PDZ_metalloprotease; cd00989 882884006954 protein binding site [polypeptide binding]; other site 882884006955 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 882884006956 putative substrate binding region [chemical binding]; other site 882884006957 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 882884006958 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 882884006959 catalytic residue [active] 882884006960 putative FPP diphosphate binding site; other site 882884006961 putative FPP binding hydrophobic cleft; other site 882884006962 dimer interface [polypeptide binding]; other site 882884006963 putative IPP diphosphate binding site; other site 882884006964 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 882884006965 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 882884006966 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 882884006967 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 882884006968 hinge region; other site 882884006969 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...; Region: AAK_UMPK-PyrH-Ec; cd04254 882884006970 putative nucleotide binding site [chemical binding]; other site 882884006971 uridine monophosphate binding site [chemical binding]; other site 882884006972 homohexameric interface [polypeptide binding]; other site 882884006973 elongation factor Ts; Provisional; Region: tsf; PRK09377 882884006974 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 882884006975 Elongation factor TS; Region: EF_TS; pfam00889 882884006976 Elongation factor TS; Region: EF_TS; pfam00889 882884006977 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 882884006978 rRNA interaction site [nucleotide binding]; other site 882884006979 S8 interaction site; other site 882884006980 putative laminin-1 binding site; other site 882884006981 methionine aminopeptidase; Reviewed; Region: PRK07281 882884006982 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 882884006983 active site 882884006984 PII uridylyl-transferase; Provisional; Region: PRK05007 882884006985 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 882884006986 metal binding triad; other site 882884006987 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 882884006988 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 882884006989 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 882884006990 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 882884006991 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 882884006992 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA...; Region: LbH_THP_succinylT; cd03350 882884006993 trimer interface [polypeptide binding]; other site 882884006994 active site 882884006995 substrate binding site [chemical binding]; other site 882884006996 CoA binding site [chemical binding]; other site 882884006997 shikimate transporter; Provisional; Region: PRK09952 882884006998 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 882884006999 putative substrate translocation pore; other site 882884007000 Protein of unknown function (DUF3461); Region: DUF3461; cl10125 882884007001 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 882884007002 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 882884007003 serine endoprotease; Provisional; Region: PRK10942 882884007004 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 882884007005 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 C-...; Region: PDZ_serine_protease; cd00987 882884007006 protein binding site [polypeptide binding]; other site 882884007007 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 C-...; Region: PDZ_serine_protease; cd00987 882884007008 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 882884007009 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 882884007010 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 882884007011 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 882884007012 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal...; Region: BtuF; cd01144 882884007013 cobalamin binding residues [chemical binding]; other site 882884007014 putative BtuC binding residues; other site 882884007015 dimer interface [polypeptide binding]; other site 882884007016 hypothetical protein; Provisional; Region: PRK10578 882884007017 UPF0126 domain; Region: UPF0126; pfam03458 882884007018 UPF0126 domain; Region: UPF0126; pfam03458 882884007019 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 882884007020 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 882884007021 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-...; Region: EriC; cd01031 882884007022 Cl- selectivity filter; other site 882884007023 Cl- binding residues [ion binding]; other site 882884007024 pore gating glutamate residue; other site 882884007025 dimer interface [polypeptide binding]; other site 882884007026 H+/Cl- coupling transport residue; other site 882884007027 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 882884007028 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 882884007029 inhibitor-cofactor binding pocket; inhibition site 882884007030 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884007031 catalytic residue [active] 882884007032 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 882884007033 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...; Region: TM_ABC_iron-siderophores_like; cd06550 882884007034 ABC-ATPase subunit interface; other site 882884007035 dimer interface [polypeptide binding]; other site 882884007036 putative PBP binding regions; other site 882884007037 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...; Region: TM_ABC_iron-siderophores_like; cd06550 882884007038 ABC-ATPase subunit interface; other site 882884007039 dimer interface [polypeptide binding]; other site 882884007040 putative PBP binding regions; other site 882884007041 iron-hydroxamate transporter substrate-binding subunit; Provisional; Region: PRK10576 882884007042 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor...; Region: FhuD; cd01146 882884007043 siderophore binding site; other site 882884007044 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 882884007045 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 882884007046 Walker A/P-loop; other site 882884007047 ATP binding site [chemical binding]; other site 882884007048 Q-loop/lid; other site 882884007049 ABC transporter signature motif; other site 882884007050 Walker B; other site 882884007051 D-loop; other site 882884007052 H-loop/switch region; other site 882884007053 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 882884007054 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 882884007055 N-terminal plug; other site 882884007056 ligand-binding site [chemical binding]; other site 882884007057 bifunctional glycosyl transferase/transpeptidase; Reviewed; Region: mrcB; PRK09506 882884007058 Transglycosylase; Region: Transgly; cl07896 882884007059 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 882884007060 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 882884007061 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 882884007062 ATP binding site [chemical binding]; other site 882884007063 putative Mg++ binding site [ion binding]; other site 882884007064 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; cl14882 882884007065 Helicase associated domain (HA2); Region: HA2; cl04503 882884007066 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 882884007067 2'-5' RNA ligase; Provisional; Region: PRK15124 882884007068 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 882884007069 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 882884007070 Sugar fermentation stimulation protein; Region: SfsA; cl00647 882884007071 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 882884007072 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 882884007073 active site 882884007074 nucleotide binding site [chemical binding]; other site 882884007075 HIGH motif; other site 882884007076 KMSKS motif; other site 882884007077 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 882884007078 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 882884007079 active site 882884007080 NTP binding site [chemical binding]; other site 882884007081 metal binding triad [ion binding]; metal-binding site 882884007082 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 882884007083 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 882884007084 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 882884007085 catalytic center binding site [active] 882884007086 ATP binding site [chemical binding]; other site 882884007087 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 882884007088 oligomerization interface [polypeptide binding]; other site 882884007089 active site 882884007090 metal binding site [ion binding]; metal-binding site 882884007091 pantoate--beta-alanine ligase; Region: panC; TIGR00018 882884007092 Pantoate-beta-alanine ligase; Region: PanC; cd00560 882884007093 active site 882884007094 ATP-binding site [chemical binding]; other site 882884007095 pantoate-binding site; other site 882884007096 HXXH motif; other site 882884007097 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 882884007098 tetramerization interface [polypeptide binding]; other site 882884007099 active site 882884007100 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 882884007101 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...; Region: PTS_IIA_man; cd00006 882884007102 active pocket/dimerization site; other site 882884007103 active site 882884007104 phosphorylation site [posttranslational modification] 882884007105 ABC-2 type transporter; Region: ABC2_membrane; cl11417 882884007106 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 882884007107 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884007108 Walker A/P-loop; other site 882884007109 ATP binding site [chemical binding]; other site 882884007110 Q-loop/lid; other site 882884007111 ABC transporter signature motif; other site 882884007112 Walker B; other site 882884007113 D-loop; other site 882884007114 H-loop/switch region; other site 882884007115 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 882884007116 active site clefts [active] 882884007117 zinc binding site [ion binding]; other site 882884007118 dimer interface [polypeptide binding]; other site 882884007119 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 882884007120 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 882884007121 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cd00216 882884007122 Trp docking motif; other site 882884007123 active site 882884007124 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cl11493 882884007125 Trp docking motif; other site 882884007126 active site 882884007127 'Velcro' closure; other site 882884007128 multicopper oxidase; Provisional; Region: PRK10965 882884007129 Multicopper oxidase; Region: Cu-oxidase; cl14658 882884007130 Multicopper oxidase; Region: Cu-oxidase; cl14658 882884007131 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 882884007132 spermidine synthase; Provisional; Region: PRK00811 882884007133 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 882884007134 S-adenosylmethionine binding site [chemical binding]; other site 882884007135 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 882884007136 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 882884007137 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 882884007138 active site 882884007139 substrate binding site [chemical binding]; other site 882884007140 trimer interface [polypeptide binding]; other site 882884007141 CoA binding site [chemical binding]; other site 882884007142 galactoside permease; Reviewed; Region: lacY; PRK09528 882884007143 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 882884007144 putative substrate translocation pore; other site 882884007145 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 882884007146 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 882884007147 domain; Region: Glyco_hydro_2; pfam00703 882884007148 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl14895 882884007149 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 882884007150 lac repressor; Reviewed; Region: lacI; PRK09526 882884007151 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 882884007152 DNA binding site [nucleotide binding] 882884007153 domain linker motif; other site 882884007154 Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_LacI; cd01574 882884007155 ligand binding site [chemical binding]; other site 882884007156 dimerization interface (open form) [polypeptide binding]; other site 882884007157 dimerization interface (closed form) [polypeptide binding]; other site 882884007158 Uncharacterised protein family (UPF0231); Region: UPF0231; cl11474 882884007159 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 882884007160 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...; Region: AcnB_Swivel; cd01576 882884007161 substrate binding site [chemical binding]; other site 882884007162 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 882884007163 substrate binding site [chemical binding]; other site 882884007164 ligand binding site [chemical binding]; other site 882884007165 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 882884007166 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 882884007167 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 882884007168 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 882884007169 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 882884007170 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 882884007171 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 882884007172 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 882884007173 E3 interaction surface; other site 882884007174 lipoyl attachment site [posttranslational modification]; other site 882884007175 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 882884007176 E3 interaction surface; other site 882884007177 lipoyl attachment site [posttranslational modification]; other site 882884007178 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 882884007179 E3 interaction surface; other site 882884007180 lipoyl attachment site [posttranslational modification]; other site 882884007181 e3 binding domain; Region: E3_binding; pfam02817 882884007182 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 882884007183 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 882884007184 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 882884007185 dimer interface [polypeptide binding]; other site 882884007186 TPP-binding site [chemical binding]; other site 882884007187 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 882884007188 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882884007189 DNA-binding site [nucleotide binding]; DNA binding site 882884007190 FCD domain; Region: FCD; cl11656 882884007191 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 882884007192 Amino acid permease; Region: AA_permease; pfam00324 882884007193 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 882884007194 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 882884007195 putative substrate translocation pore; other site 882884007196 Glycosyl hydrolases family 43; Region: Glyco_hydro_43; pfam04616 882884007197 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 882884007198 active site 882884007199 CobD/Cbib protein; Region: CobD_Cbib; cl00561 882884007200 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 882884007201 substrate binding site [chemical binding]; other site 882884007202 amidase catalytic site [active] 882884007203 Zn binding residues [ion binding]; other site 882884007204 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 882884007205 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 5-...; Region: QPRTase; cd01572 882884007206 dimerization interface [polypeptide binding]; other site 882884007207 active site 882884007208 putative major pilin subunit; Provisional; Region: PRK10574 882884007209 Pilin (bacterial filament); Region: Pilin; pfam00114 882884007210 hypothetical protein; Provisional; Region: PRK10436 882884007211 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 882884007212 Walker A motif; other site 882884007213 ATP binding site [chemical binding]; other site 882884007214 Walker B motif; other site 882884007215 type IV pilin biogenesis protein; Provisional; Region: PRK10573 882884007216 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 882884007217 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 882884007218 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 882884007219 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the...; Region: IMPDH; cd00381 882884007220 active site 882884007221 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 882884007222 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 882884007223 CoA-binding site [chemical binding]; other site 882884007224 ATP-binding [chemical binding]; other site 882884007225 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 882884007226 Domain of unknown function (DUF329); Region: DUF329; cl01144 882884007227 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884007228 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 882884007229 active site 882884007230 8-oxo-dGMP binding site [chemical binding]; other site 882884007231 nudix motif; other site 882884007232 metal binding site [ion binding]; metal-binding site 882884007233 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 882884007234 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; cl14882 882884007235 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 882884007236 SEC-C motif; Region: SEC-C; cl12132 882884007237 Secretion monitor precursor protein (SecM); Region: SecM; cl11636 882884007238 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 882884007239 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 882884007240 cell division protein FtsZ; Validated; Region: PRK09330 882884007241 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...; Region: FtsZ_type1; cd02201 882884007242 nucleotide binding site [chemical binding]; other site 882884007243 SulA interaction site; other site 882884007244 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 882884007245 Cell division protein FtsA; Region: FtsA; cl11496 882884007246 Cell division protein FtsA; Region: FtsA; cl11496 882884007247 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 882884007248 Cell division protein FtsQ; Region: FtsQ; pfam03799 882884007249 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 882884007250 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 882884007251 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 882884007252 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 882884007253 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 882884007254 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 882884007255 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 882884007256 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 882884007257 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...; Region: GT1_MurG; cd03785 882884007258 active site 882884007259 homodimer interface [polypeptide binding]; other site 882884007260 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 882884007261 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 882884007262 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 882884007263 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 882884007264 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 882884007265 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 undecaprenyl-pyrophosphoryl-N-...; Region: GT_MraY; cd06852 882884007266 Mg++ binding site [ion binding]; other site 882884007267 putative catalytic motif [active] 882884007268 putative substrate binding site [chemical binding]; other site 882884007269 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 882884007270 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 882884007271 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 882884007272 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 882884007273 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 882884007274 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 882884007275 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 882884007276 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 882884007277 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 882884007278 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 882884007279 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 882884007280 Septum formation initiator; Region: DivIC; cl11433 882884007281 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 882884007282 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 882884007283 mraZ protein; Region: TIGR00242 882884007284 MraZ protein; Region: MraZ; pfam02381 882884007285 MraZ protein; Region: MraZ; pfam02381 882884007286 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 882884007287 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 882884007288 DNA binding site [nucleotide binding] 882884007289 domain linker motif; other site 882884007290 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 882884007291 dimerization interface [polypeptide binding]; other site 882884007292 ligand binding site [chemical binding]; other site 882884007293 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 882884007294 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 882884007295 putative valine binding site [chemical binding]; other site 882884007296 dimer interface [polypeptide binding]; other site 882884007297 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 882884007298 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK07979 882884007299 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 882884007300 PYR/PP interface [polypeptide binding]; other site 882884007301 dimer interface [polypeptide binding]; other site 882884007302 TPP binding site [chemical binding]; other site 882884007303 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 882884007304 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 882884007305 TPP-binding site [chemical binding]; other site 882884007306 dimer interface [polypeptide binding]; other site 882884007307 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 882884007308 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884007309 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 882884007310 putative substrate binding pocket [chemical binding]; other site 882884007311 putative dimerization interface [polypeptide binding]; other site 882884007312 leucine operon leader 882884007313 2-isopropylmalate synthase; Validated; Region: PRK00915 882884007314 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 882884007315 active site 882884007316 catalytic residues [active] 882884007317 metal binding site [ion binding]; metal-binding site 882884007318 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 882884007319 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 882884007320 isocitrate dehydrogenase; Validated; Region: PRK06451 882884007321 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 882884007322 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 882884007323 substrate binding site [chemical binding]; other site 882884007324 ligand binding site [chemical binding]; other site 882884007325 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 3-...; Region: IPMI_Swivel; cd01577 882884007326 substrate binding site [chemical binding]; other site 882884007327 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 882884007328 sugar efflux transporter; Region: 2A0120; TIGR00899 882884007329 putative substrate translocation pore; other site 882884007330 transcriptional regulator SgrR; Provisional; Region: PRK13626 882884007331 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 882884007332 The C-terminal solute-binding domain of DNA-binding transcriptional regulator SgrR is related to the ABC-type oligopeptide-binding proteins and contains the type 2 periplasmic-binding fold; Region: PBP2_SgrR_like; cd08507 882884007333 TPP riboswitch (THI element) 882884007334 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884007335 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 882884007336 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 882884007337 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...; Region: TM_PBP2; cd06261 882884007338 dimer interface [polypeptide binding]; other site 882884007339 conserved gate region; other site 882884007340 putative PBP binding loops; other site 882884007341 ABC-ATPase subunit interface; other site 882884007342 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...; Region: TM_PBP2; cd06261 882884007343 dimer interface [polypeptide binding]; other site 882884007344 conserved gate region; other site 882884007345 putative PBP binding loops; other site 882884007346 ABC-ATPase subunit interface; other site 882884007347 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 882884007348 ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP. Probably responsible for the translocation of thiamine across the membrane. ABC transporters are a large family of proteins...; Region: ABC_ThiQ_thiamine_transporter; cd03298 882884007349 Walker A/P-loop; other site 882884007350 ATP binding site [chemical binding]; other site 882884007351 Q-loop/lid; other site 882884007352 ABC transporter signature motif; other site 882884007353 Walker B; other site 882884007354 D-loop; other site 882884007355 H-loop/switch region; other site 882884007356 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 882884007357 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 882884007358 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 882884007359 Cupin domain; Region: Cupin_2; cl09118 882884007360 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882884007361 ribulokinase; Provisional; Region: PRK04123 882884007362 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 882884007363 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 882884007364 L-arabinose isomerase; Provisional; Region: PRK02929 882884007365 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 882884007366 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 882884007367 trimer interface [polypeptide binding]; other site 882884007368 putative substrate binding site [chemical binding]; other site 882884007369 putative metal binding site [ion binding]; other site 882884007370 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; cd00398 882884007371 intersubunit interface [polypeptide binding]; other site 882884007372 active site 882884007373 Zn2+ binding site [ion binding]; other site 882884007374 DNA polymerase II; Reviewed; Region: PRK05762 882884007375 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 882884007376 active site 882884007377 catalytic site [active] 882884007378 substrate binding site [chemical binding]; other site 882884007379 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 882884007380 active site 882884007381 metal-binding site 882884007382 ATP-dependent helicase HepA; Validated; Region: PRK04914 882884007383 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 882884007384 ATP binding site [chemical binding]; other site 882884007385 putative Mg++ binding site [ion binding]; other site 882884007386 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 882884007387 nucleotide binding region [chemical binding]; other site 882884007388 ATP-binding site [chemical binding]; other site 882884007389 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 882884007390 active site 882884007391 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 882884007392 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 882884007393 putative metal binding site [ion binding]; other site 882884007394 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...; Region: DnaJ; cd06257 882884007395 HSP70 interaction site [polypeptide binding]; other site 882884007396 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 882884007397 OstA-like protein; Region: OstA; cl00844 882884007398 Organic solvent tolerance protein; Region: OstA_C; pfam04453 882884007399 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 882884007400 SurA N-terminal domain; Region: SurA_N; pfam09312 882884007401 PPIC-type PPIASE domain; Region: Rotamase; cl08278 882884007402 PPIC-type PPIASE domain; Region: Rotamase; cl08278 882884007403 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 882884007404 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 882884007405 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 882884007406 Protein of unknown function (DUF525); Region: DUF525; cl01119 882884007407 bis(5'-nucleosyl)-tetraphosphatase (symmetrical); Region: apaH; TIGR00668 882884007408 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 882884007409 active site 882884007410 metal binding site [ion binding]; metal-binding site 882884007411 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5,10-...; Region: DHFR; cd00209 882884007412 folate binding site [chemical binding]; other site 882884007413 NADP+ binding site [chemical binding]; other site 882884007414 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 882884007415 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 882884007416 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884007417 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 882884007418 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 882884007419 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 882884007420 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 882884007421 putative substrate translocation pore; other site 882884007422 ferredoxin-like protein FixX; Provisional; Region: PRK15449 882884007423 putative oxidoreductase FixC; Provisional; Region: PRK10157 882884007424 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 882884007425 putative electron transfer flavoprotein FixB; Provisional; Region: fixB; PRK03363 882884007426 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 882884007427 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 882884007428 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 882884007429 Ligand binding site [chemical binding]; other site 882884007430 BCCT family transporter; Region: BCCT; cl00569 882884007431 crotonobetainyl-CoA dehydrogenase; Validated; Region: PRK03354 882884007432 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 882884007433 active site 882884007434 CoA-transferase family III; Region: CoA_transf_3; cl00778 882884007435 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 882884007436 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 882884007437 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 882884007438 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 882884007439 substrate binding site [chemical binding]; other site 882884007440 oxyanion hole (OAH) forming residues; other site 882884007441 trimer interface [polypeptide binding]; other site 882884007442 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 882884007443 Sulfatase; Region: Sulfatase; cl10460 882884007444 Sulfatase; Region: Sulfatase; cl10460 882884007445 DNA-binding transcriptional activator CaiF; Provisional; Region: PRK11476 882884007446 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 882884007447 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 882884007448 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 882884007449 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 882884007450 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 882884007451 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 882884007452 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 882884007453 IMP binding site; other site 882884007454 dimer interface [polypeptide binding]; other site 882884007455 interdomain contacts; other site 882884007456 partial ornithine binding site; other site 882884007457 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 882884007458 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 882884007459 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 882884007460 catalytic site [active] 882884007461 subunit interface [polypeptide binding]; other site 882884007462 dihydrodipicolinate reductase; Provisional; Region: PRK00048 882884007463 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884007464 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 882884007465 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 882884007466 active site 882884007467 tetramer interface [polypeptide binding]; other site 882884007468 LytB protein; Region: LYTB; cl00507 882884007469 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 882884007470 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 882884007471 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 882884007472 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 882884007473 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 882884007474 HIGH motif; other site 882884007475 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 882884007476 active site 882884007477 KMSKS motif; other site 882884007478 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 882884007479 tRNA binding surface [nucleotide binding]; other site 882884007480 anticodon binding site; other site 882884007481 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 882884007482 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 882884007483 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 882884007484 active site 882884007485 Riboflavin kinase; Region: Flavokinase; pfam01687 882884007486 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 882884007487 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 882884007488 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884007489 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 882884007490 putative dimerization interface [polypeptide binding]; other site 882884007491 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 882884007492 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 882884007493 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 882884007494 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 882884007495 FeS/SAM binding site; other site 882884007496 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 882884007497 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 882884007498 Sulfatase; Region: Sulfatase; cl10460 882884007499 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 882884007500 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 882884007501 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 882884007502 active site 882884007503 metal binding site [ion binding]; metal-binding site 882884007504 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 882884007505 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 882884007506 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...; Region: trans_reg_C; cl00209 882884007507 Transcriptional regulator [Transcription]; Region: LysR; COG0583 882884007508 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884007509 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884007510 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...; Region: trans_reg_C; cl00209 882884007511 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a...; Region: DsbA_Com1_like; cd03023 882884007512 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 882884007513 catalytic residues [active] 882884007514 fimbrial chaperone BcfG; Provisional; Region: PRK15192 882884007515 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 882884007516 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 882884007517 Fimbrial protein; Region: Fimbrial; cl01416 882884007518 Fimbrial protein; Region: Fimbrial; cl01416 882884007519 Fimbrial protein; Region: Fimbrial; cl01416 882884007520 pilin outer membrane usher protein SafC; Provisional; Region: PRK15223; cl14650 882884007521 Fimbrial Usher protein; Region: Usher; pfam00577 882884007522 fimbrial chaperone protein BcfB; Provisional; Region: PRK15188 882884007523 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 882884007524 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 882884007525 Fimbrial protein; Region: Fimbrial; cl01416 882884007526 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 882884007527 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11832 882884007528 Chitinase [Carbohydrate transport and metabolism]; Region: ChiA; COG3325 882884007529 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is...; Region: GH18_chitinase; cd06548 882884007530 active site 882884007531 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 882884007532 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 882884007533 chitin/cellulose binding site [chemical binding]; other site 882884007534 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...; Region: trans_reg_C; cl00209 882884007535 Predicted lysozyme (DUF847); Region: DUF847; pfam05838 882884007536 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 882884007537 Transcriptional regulator [Transcription]; Region: LysR; COG0583 882884007538 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884007539 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884007540 dimerization interface [polypeptide binding]; other site 882884007541 chaperone protein DnaJ; Provisional; Region: PRK10767 882884007542 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...; Region: DnaJ; cd06257 882884007543 HSP70 interaction site [polypeptide binding]; other site 882884007544 DnaJ central domain; Region: DnaJ_CXXCXGXG; cl14908 882884007545 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 882884007546 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 882884007547 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 882884007548 catalytic residues [active] 882884007549 catalytic nucleophile [active] 882884007550 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 882884007551 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 882884007552 MPT binding site; other site 882884007553 trimer interface [polypeptide binding]; other site 882884007554 Uncharacterized conserved protein [Function unknown]; Region: COG5464 882884007555 transaldolase-like protein; Provisional; Region: PTZ00411 882884007556 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 882884007557 active site 882884007558 dimer interface [polypeptide binding]; other site 882884007559 catalytic residue [active] 882884007560 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 882884007561 Protein of unknown function (DUF328); Region: DUF328; cl01143 882884007562 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 882884007563 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 882884007564 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884007565 catalytic residue [active] 882884007566 homoserine kinase; Provisional; Region: PRK01212 882884007567 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 882884007568 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 882884007569 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli AKI-...; Region: AAK_AK-HSDH; cd04257 882884007570 putative catalytic residues [active] 882884007571 putative nucleotide binding site [chemical binding]; other site 882884007572 putative aspartate binding site [chemical binding]; other site 882884007573 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 882884007574 dimer interface [polypeptide binding]; other site 882884007575 putative threonine allosteric regulatory site; other site 882884007576 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 882884007577 putative threonine allosteric regulatory site; other site 882884007578 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884007579 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 882884007580 threonine operon leader 882884007581 putative RNA methyltransferase; Provisional; Region: PRK10433 882884007582 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 882884007583 two-component response regulator; Provisional; Region: PRK11173 882884007584 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884007585 active site 882884007586 phosphorylation site [posttranslational modification] 882884007587 intermolecular recognition site; other site 882884007588 dimerization interface [polypeptide binding]; other site 882884007589 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...; Region: trans_reg_C; cd00383 882884007590 DNA binding site [nucleotide binding] 882884007591 putative major fimbrial protein SthE; Provisional; Region: PRK15292 882884007592 Inner membrane protein CreD; Region: CreD; cl01844 882884007593 CreA protein; Region: CreA; cl01154 882884007594 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 882884007595 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882884007596 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 882884007597 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 882884007598 catalytic core [active] 882884007599 Protein of unknown function DUF84; Region: NTPase_I-T; cl00866 882884007600 Trp repressor protein; Region: Trp_repressor; cl01121 882884007601 lytic murein transglycosylase; Provisional; Region: PRK11619 882884007602 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 882884007603 N-acetyl-D-glucosamine binding site [chemical binding]; other site 882884007604 catalytic residue [active] 882884007605 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 882884007606 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 882884007607 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884007608 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 882884007609 ABC transporter; Region: ABC_tran_2; pfam12848 882884007610 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 882884007611 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 882884007612 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 882884007613 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 882884007614 active site 882884007615 (T/H)XGH motif; other site 882884007616 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; cl01238 882884007617 DNA repair protein RadA; Region: sms; TIGR00416 882884007618 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 882884007619 Walker A motif/ATP binding site; other site 882884007620 ATP binding site [chemical binding]; other site 882884007621 Walker B motif; other site 882884007622 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 882884007623 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 882884007624 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 882884007625 motif II; other site 882884007626 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 882884007627 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 882884007628 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 882884007629 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 882884007630 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 882884007631 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 882884007632 Sulfatase; Region: Sulfatase; cl10460 882884007633 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 882884007634 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 882884007635 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 882884007636 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 882884007637 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 882884007638 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 882884007639 intersubunit interface [polypeptide binding]; other site 882884007640 active site 882884007641 catalytic residue [active] 882884007642 hypothetical protein; Provisional; Region: PRK10977 882884007643 Glycine radical; Region: Gly_radical; cl12026 882884007644 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; cl14056 882884007645 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 882884007646 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 882884007647 active site 882884007648 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 882884007649 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 882884007650 active site 882884007651 nucleophile elbow; other site 882884007652 periplasmic protein; Provisional; Region: PRK10568 882884007653 BON domain; Region: BON; cl02771 882884007654 BON domain; Region: BON; cl02771 882884007655 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 882884007656 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 882884007657 G1 box; other site 882884007658 putative GEF interaction site [polypeptide binding]; other site 882884007659 GTP/Mg2+ binding site [chemical binding]; other site 882884007660 Switch I region; other site 882884007661 G2 box; other site 882884007662 G3 box; other site 882884007663 Switch II region; other site 882884007664 G4 box; other site 882884007665 G5 box; other site 882884007666 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 882884007667 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 882884007668 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 882884007669 motif II; other site 882884007670 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 882884007671 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882884007672 Coenzyme A binding pocket [chemical binding]; other site 882884007673 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 882884007674 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 882884007675 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 882884007676 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 882884007677 S-adenosylmethionine binding site [chemical binding]; other site 882884007678 Protein of unknown function (DUF1435); Region: DUF1435; pfam07256 882884007679 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882884007680 metal binding site [ion binding]; metal-binding site 882884007681 active site 882884007682 I-site; other site 882884007683 ferric iron reductase involved in ferric hydroximate transport; Provisional; Region: PRK10647 882884007684 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 882884007685 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 882884007686 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 882884007687 putative deacylase active site [active] 882884007688 DNA-binding transcriptional activator BglJ; Provisional; Region: PRK11475 882884007689 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...; Region: LuxR_C_like; cd06170 882884007690 DNA binding residues [nucleotide binding] 882884007691 dimerization interface [polypeptide binding]; other site 882884007692 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 882884007693 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...; Region: LuxR_C_like; cd06170 882884007694 DNA binding residues [nucleotide binding] 882884007695 dimerization interface [polypeptide binding]; other site 882884007696 Uncharacterized conserved protein [Function unknown]; Region: COG2966 882884007697 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 882884007698 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 882884007699 Phd_YefM; Region: PhdYeFM; cl09153 882884007700 DNA replication protein DnaC; Validated; Region: PRK07952 882884007701 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...; Region: AAA; cd00009 882884007702 Walker A motif; other site 882884007703 ATP binding site [chemical binding]; other site 882884007704 Walker B motif; other site 882884007705 Sulfatase; Region: Sulfatase; cl10460 882884007706 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 882884007707 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 882884007708 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS_1; cd05710 882884007709 putative active site [active] 882884007710 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 882884007711 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 882884007712 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 882884007713 dimer interface [polypeptide binding]; other site 882884007714 active site 882884007715 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 882884007716 dimer interface [polypeptide binding]; other site 882884007717 active site 882884007718 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 882884007719 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 882884007720 Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four...; Region: PTS_IIB_man; cd00001 882884007721 active site 882884007722 phosphorylation site [posttranslational modification] 882884007723 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...; Region: PTS_IIA_man; cd00006 882884007724 active pocket/dimerization site; other site 882884007725 active site 882884007726 phosphorylation site [posttranslational modification] 882884007727 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 882884007728 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...; Region: AAA; cd00009 882884007729 Walker A motif; other site 882884007730 ATP binding site [chemical binding]; other site 882884007731 Walker B motif; other site 882884007732 arginine finger; other site 882884007733 Transcriptional antiterminator [Transcription]; Region: COG3933 882884007734 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...; Region: PTS_IIA_man; cd00006 882884007735 active pocket/dimerization site; other site 882884007736 active site 882884007737 phosphorylation site [posttranslational modification] 882884007738 PRD domain; Region: PRD; pfam00874 882884007739 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 882884007740 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cd00181 882884007741 dimerization interface [polypeptide binding]; other site 882884007742 ligand (aspartate) binding pocket [chemical binding]; other site 882884007743 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 connected by an extended linker. The...; Region: HAMP; cd06225 882884007744 dimerization interface [polypeptide binding]; other site 882884007745 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 882884007746 Carbon starvation protein CstA; Region: CstA; cl00856 882884007747 Protein of unknown function (DUF466); Region: DUF466; cl01082 882884007748 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 882884007749 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 882884007750 P-loop, Walker A motif; other site 882884007751 Base recognition motif; other site 882884007752 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 882884007753 Cupin domain; Region: Cupin_2; cl09118 882884007754 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 882884007755 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882884007756 LysE type translocator; Region: LysE; cl00565 882884007757 Protein of unknown function DUF91; Region: DUF91; cl00709 882884007758 Uncharacterized conserved protein [Function unknown]; Region: COG3586 882884007759 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 882884007760 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 882884007761 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 882884007762 NAD(P) binding site [chemical binding]; other site 882884007763 catalytic residues [active] 882884007764 multidrug efflux system protein MdtM; Provisional; Region: PRK15403 882884007765 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 882884007766 putative substrate translocation pore; other site 882884007767 Predicted membrane protein [Function unknown]; Region: COG2733 882884007768 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 882884007769 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 882884007770 Integrase core domain; Region: rve; cl01316 882884007771 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 882884007772 Nucleoside recognition; Region: Gate; cl00486 882884007773 Nucleoside recognition; Region: Gate; cl00486 882884007774 Isoaspartyl dipeptidase hydrolyzes the beta-L-isoaspartyl linkages in dipeptides, as part of the degradative pathway to eliminate proteins with beta-L-isoaspartyl peptide bonds, bonds whereby the beta-group of an aspartate forms the peptide link with...; Region: Isoaspartyl-dipeptidase; cd01308 882884007775 isoaspartyl dipeptidase; Provisional; Region: PRK10657 882884007776 dimer interface [polypeptide binding]; other site 882884007777 active site 882884007778 cell density-dependent motility repressor; Provisional; Region: PRK10082 882884007779 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884007780 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 882884007781 dimerization interface [polypeptide binding]; other site 882884007782 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 882884007783 aspartate racemase; Region: asp_race; TIGR00035 882884007784 Protein of unknown function (DUF796); Region: DUF796; cl01226 882884007785 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 882884007786 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 882884007787 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882884007788 DNA-binding site [nucleotide binding]; DNA binding site 882884007789 FCD domain; Region: FCD; cl11656 882884007790 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 882884007791 Domain of unknown function DUF302; Region: DUF302; cl01364 882884007792 Integrase core domain; Region: rve; cl01316 882884007793 putative transposase OrfB; Reviewed; Region: PHA02517 882884007794 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 882884007795 Transposase; Region: DEDD_Tnp_IS110; pfam01548 882884007796 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; cl01116 882884007797 integrase; Provisional; Region: PRK09692 882884007798 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 882884007799 active site 882884007800 Int/Topo IB signature motif; other site 882884007801 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 882884007802 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...; Region: ParA; cd02042 882884007803 Magnesium ion binding site [ion binding]; other site 882884007804 replicative DNA helicase; Region: DnaB; TIGR00665 882884007805 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 882884007806 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 882884007807 Walker A motif; other site 882884007808 ATP binding site [chemical binding]; other site 882884007809 Walker B motif; other site 882884007810 DNA binding loops [nucleotide binding] 882884007811 ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 882884007812 ParB-like nuclease domain; Region: ParBc; cl02129 882884007813 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 882884007814 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 882884007815 Integrase core domain; Region: rve; cl01316 882884007816 hypothetical protein; Provisional; Region: PRK09945 882884007817 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases...; Region: PL1_Passenger_AT; cd01343 882884007818 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 882884007819 Autotransporter beta-domain; Region: Autotransporter; cl02365 882884007820 Fic family protein [Function unknown]; Region: COG3177 882884007821 Fic/DOC family; Region: Fic; cl00960 882884007822 Domain of unknown function (DUF1845); Region: DUF1845; cl07481 882884007823 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 882884007824 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 882884007825 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 882884007826 seryl-tRNA synthetase; Region: serS; TIGR00414 882884007827 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 882884007828 Protein of unknown function (DUF2859); Region: DUF2859; cl12633 882884007829 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl14888 882884007830 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 882884007831 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 882884007832 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 882884007833 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 882884007834 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; cl09893 882884007835 Protein of unknown function (DUF3262); Region: DUF3262; cl13160 882884007836 Protein of unknown function (DUF2976); Region: DUF2976; cl12739 882884007837 Protein of unknown function (DUF3487); Region: DUF3487; cl13432 882884007838 Protein of unknown function (DUF2895); Region: DUF2895; cl12968 882884007839 Protein of unknown function (DUF3438); Region: DUF3438; cl13372 882884007840 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 882884007841 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 882884007842 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 882884007843 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884007844 Walker A motif; other site 882884007845 ATP binding site [chemical binding]; other site 882884007846 Protein of unknown function (DUF796); Region: DUF796; cl01226 882884007847 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 882884007848 non-specific DNA binding site [nucleotide binding]; other site 882884007849 salt bridge; other site 882884007850 sequence-specific DNA binding site [nucleotide binding]; other site 882884007851 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 882884007852 non-specific DNA binding site [nucleotide binding]; other site 882884007853 salt bridge; other site 882884007854 sequence-specific DNA binding site [nucleotide binding]; other site 882884007855 Predicted transcriptional regulator [Transcription]; Region: Nlp; cl01357 882884007856 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 882884007857 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 882884007858 ligand binding site [chemical binding]; other site 882884007859 flexible hinge region; other site 882884007860 DNA cytosine methylase; Provisional; Region: PRK10458 882884007861 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 882884007862 cofactor binding site; other site 882884007863 DNA binding site [nucleotide binding] 882884007864 substrate interaction site [chemical binding]; other site 882884007865 N-terminal domain of type IIE restriction endonuclease EcoRII and similar proteins; Region: EcoRII_N; cd10016 882884007866 DNA binding site [nucleotide binding] 882884007867 EcoRII C terminal; Region: EcoRII-C; pfam09019 882884007868 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 882884007869 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 882884007870 FeS/SAM binding site; other site 882884007871 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 882884007872 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 882884007873 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 882884007874 Sulfatase; Region: Sulfatase; cl10460 882884007875 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 882884007876 galactoside permease; Reviewed; Region: lacY; PRK09528 882884007877 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 882884007878 putative substrate translocation pore; other site 882884007879 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 882884007880 Alpha-N-acetylglucosaminidase (NAGLU) N-terminal domain; Region: NAGLU_N; pfam12971 882884007881 Alpha-N-acetylglucosaminidase (NAGLU) tim-barrel domain; Region: NAGLU; pfam05089 882884007882 Alpha-N-acetylglucosaminidase (NAGLU) C-terminal domain; Region: NAGLU_C; pfam12972 882884007883 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 882884007884 Outer membrane protein G (OmpG); Region: Porin_OmpG; pfam09381 882884007885 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cd00413 882884007886 active site 882884007887 catalytic residues [active] 882884007888 TraU protein; Region: TraU; cl06067 882884007889 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 882884007890 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 882884007891 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 882884007892 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 882884007893 S-adenosylmethionine binding site [chemical binding]; other site 882884007894 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...; Region: HNHc; cl00083 882884007895 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884007896 ATP binding site [chemical binding]; other site 882884007897 Mg2+ binding site [ion binding]; other site 882884007898 G-X-G motif; other site 882884007899 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 882884007900 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 882884007901 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 882884007902 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 882884007903 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 882884007904 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 882884007905 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 882884007906 DNA binding site [nucleotide binding] 882884007907 Int/Topo IB signature motif; other site 882884007908 active site 882884007909 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 882884007910 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 882884007911 putative NAD(P) binding site [chemical binding]; other site 882884007912 putative substrate binding site [chemical binding]; other site 882884007913 catalytic Zn binding site [ion binding]; other site 882884007914 structural Zn binding site [ion binding]; other site 882884007915 dimer interface [polypeptide binding]; other site 882884007916 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 882884007917 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 882884007918 ATP-binding site [chemical binding]; other site 882884007919 Gluconate-6-phosphate binding site [chemical binding]; other site 882884007920 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 882884007921 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884007922 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 882884007923 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 882884007924 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 882884007925 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 882884007926 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884007927 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 882884007928 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 882884007929 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 882884007930 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 882884007931 multifunctional aminopeptidase A; Provisional; Region: PRK00913 882884007932 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein...; Region: Peptidase_M17; cd00433 882884007933 interface (dimer of trimers) [polypeptide binding]; other site 882884007934 Substrate-binding/catalytic site; other site 882884007935 Zn-binding sites [ion binding]; other site 882884007936 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 882884007937 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 882884007938 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 882884007939 HIGH motif; other site 882884007940 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 882884007941 active site 882884007942 KMSKS motif; other site 882884007943 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 882884007944 tRNA binding surface [nucleotide binding]; other site 882884007945 anticodon binding site; other site 882884007946 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 882884007947 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 882884007948 active site flap/lid [active] 882884007949 nucleophilic elbow; other site 882884007950 catalytic triad [active] 882884007951 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 882884007952 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882884007953 Coenzyme A binding pocket [chemical binding]; other site 882884007954 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 882884007955 active site 882884007956 dinuclear metal binding site [ion binding]; other site 882884007957 dimerization interface [polypeptide binding]; other site 882884007958 Protein of unknown function (DUF1260); Region: DUF1260; cl01170 882884007959 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 882884007960 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 882884007961 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 882884007962 Domain of unknown function (DUF386); Region: DUF386; cl01047 882884007963 Amidinotransferase; Region: Amidinotransf; cl12043 882884007964 Arginine deiminase [Amino acid transport and metabolism]; Region: ArcA; COG2235 882884007965 carbamate kinase; Reviewed; Region: PRK09411 882884007966 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 882884007967 putative substrate binding site [chemical binding]; other site 882884007968 nucleotide binding site [chemical binding]; other site 882884007969 nucleotide binding site [chemical binding]; other site 882884007970 homodimer interface [polypeptide binding]; other site 882884007971 ornithine carbamoyltransferase; Validated; Region: PRK02102 882884007972 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 882884007973 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 882884007974 Predicted membrane protein [Function unknown]; Region: COG1288 882884007975 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 882884007976 Arginine repressor [Transcription]; Region: ArgR; COG1438 882884007977 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 882884007978 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 882884007979 aspartate carbamoyltransferase; Region: asp_carb_tr; TIGR00670 882884007980 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 882884007981 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 882884007982 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 882884007983 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 882884007984 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 882884007985 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 882884007986 homotrimer interaction site [polypeptide binding]; other site 882884007987 putative active site [active] 882884007988 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 882884007989 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 882884007990 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 882884007991 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; cl11391 882884007992 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; cl11391 882884007993 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 882884007994 trehalose repressor; Provisional; Region: treR; PRK09492 882884007995 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 882884007996 DNA binding site [nucleotide binding] 882884007997 domain linker motif; other site 882884007998 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 882884007999 dimerization interface [polypeptide binding]; other site 882884008000 ligand binding site [chemical binding]; other site 882884008001 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIB_glc; cd00212 882884008002 active site turn [active] 882884008003 phosphorylation site [posttranslational modification] 882884008004 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 882884008005 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 882884008006 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 882884008007 ATP cone domain; Region: ATP-cone; pfam03477 882884008008 Class III ribonucleotide reductase; Region: RNR_III; cd01675 882884008009 effector binding site; other site 882884008010 active site 882884008011 Zn binding site [ion binding]; other site 882884008012 glycine loop; other site 882884008013 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; cl14056 882884008014 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 882884008015 RelB antitoxin; Region: RelB; cl01171 882884008016 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; cl00163 882884008017 conserved hypothetical protein EF_0830/AHA_3911; Region: EF_0830; TIGR03577 882884008018 conserved hypothetical protein EF_0831/AHA_3912; Region: EF_0831; TIGR03578 882884008019 PRD domain protein EF_0829/AHA_3910; Region: EF_0829; TIGR03582 882884008020 Cytochrome b562; Region: Cytochrom_B562; cl01546 882884008021 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 882884008022 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 882884008023 Protein of unknown function (DUF615); Region: DUF615; cl01147 882884008024 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 882884008025 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 882884008026 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 882884008027 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 882884008028 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-1,7-...; Region: FBPase; cd00354 882884008029 AMP binding site [chemical binding]; other site 882884008030 metal binding site [ion binding]; metal-binding site 882884008031 active site 882884008032 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 882884008033 dimer interface [polypeptide binding]; other site 882884008034 substrate binding site [chemical binding]; other site 882884008035 metal binding sites [ion binding]; metal-binding site 882884008036 Protein of unknown function (DUF796); Region: DUF796; cl01226 882884008037 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 882884008038 putative active site pocket [active] 882884008039 dimerization interface [polypeptide binding]; other site 882884008040 putative catalytic residue [active] 882884008041 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 882884008042 Family of unknown function (DUF490); Region: DUF490; pfam04357 882884008043 Family of unknown function (DUF490); Region: DUF490; pfam04357 882884008044 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 882884008045 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 882884008046 Surface antigen; Region: Bac_surface_Ag; cl03097 882884008047 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 882884008048 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 882884008049 Domain of unknown function DUF21; Region: DUF21; pfam01595 882884008050 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 882884008051 Transporter associated domain; Region: CorC_HlyC; pfam03471 882884008052 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 882884008053 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; cl01158 882884008054 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 882884008055 active site 882884008056 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 882884008057 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 882884008058 active site 882884008059 metal binding site [ion binding]; metal-binding site 882884008060 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 882884008061 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884008062 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 882884008063 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 882884008064 NADP binding site [chemical binding]; other site 882884008065 EamA-like transporter family; Region: EamA; cl01037 882884008066 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 882884008067 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 882884008068 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 882884008069 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl11605 882884008070 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl11605 882884008071 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 882884008072 Amino acid permease; Region: AA_permease; pfam00324 882884008073 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 882884008074 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 882884008075 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 882884008076 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 882884008077 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 882884008078 EamA-like transporter family; Region: EamA; cl01037 882884008079 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 882884008080 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 882884008081 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 882884008082 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 882884008083 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 882884008084 dimer interface [polypeptide binding]; other site 882884008085 ssDNA binding site [nucleotide binding]; other site 882884008086 tetramer (dimer of dimers) interface [polypeptide binding]; other site 882884008087 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 882884008088 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 882884008089 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; cd00398 882884008090 intersubunit interface [polypeptide binding]; other site 882884008091 active site 882884008092 Zn2+ binding site [ion binding]; other site 882884008093 L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13209 882884008094 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 D-arabino-6-...; Region: AP2Ec; cd00019 882884008095 AP (apurinic/apyrimidinic) site pocket; other site 882884008096 DNA interaction; other site 882884008097 Metal-binding active site; metal-binding site 882884008098 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 882884008099 active site 882884008100 dimer interface [polypeptide binding]; other site 882884008101 magnesium binding site [ion binding]; other site 882884008102 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 882884008103 active site 882884008104 phosphorylation site [posttranslational modification] 882884008105 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 882884008106 P-loop; other site 882884008107 active site 882884008108 phosphorylation site [posttranslational modification] 882884008109 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 882884008110 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 882884008111 transcriptional repressor UlaR; Provisional; Region: PRK13509 882884008112 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884008113 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 882884008114 esterase; Provisional; Region: PRK10566 882884008115 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 882884008116 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 882884008117 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 882884008118 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 882884008119 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 882884008120 Proteins involved in DNA damage response, similar to the AidB gene product; Region: AidB; cd01154 882884008121 FAD binding site [chemical binding]; other site 882884008122 substrate binding site [chemical binding]; other site 882884008123 catalytic residues [active] 882884008124 Glutathionylspermidine synthase; Region: GSP_synth; cl00503 882884008125 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 882884008126 PspA/IM30 family; Region: PspA_IM30; pfam04012 882884008127 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; cl01551 882884008128 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 882884008129 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 882884008130 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 882884008131 exoribonuclease R; Provisional; Region: PRK11642 882884008132 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 882884008133 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 882884008134 RNB domain; Region: RNB; pfam00773 882884008135 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an...; Region: S1_RNase_R; cd04471 882884008136 RNA binding site [nucleotide binding]; other site 882884008137 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884008138 adenylosuccinate synthetase; Provisional; Region: PRK01117 882884008139 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 r-...; Region: AdSS; cd03108 882884008140 GDP-binding site [chemical binding]; other site 882884008141 ACT binding site; other site 882884008142 IMP binding site; other site 882884008143 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 882884008144 FtsH protease regulator HflC; Provisional; Region: PRK11029 882884008145 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 882884008146 FtsH protease regulator HflK; Provisional; Region: PRK10930 882884008147 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 882884008148 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 882884008149 GTPase HflX; Provisional; Region: PRK11058 882884008150 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 882884008151 G1 box; other site 882884008152 GTP/Mg2+ binding site [chemical binding]; other site 882884008153 Switch I region; other site 882884008154 G2 box; other site 882884008155 G3 box; other site 882884008156 Switch II region; other site 882884008157 G4 box; other site 882884008158 G5 box; other site 882884008159 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 882884008160 Sm1 motif; other site 882884008161 intra - hexamer interaction site; other site 882884008162 inter - hexamer interaction site [polypeptide binding]; other site 882884008163 nucleotide binding pocket [chemical binding]; other site 882884008164 Sm2 motif; other site 882884008165 IPP transferase; Region: IPPT; cl00403 882884008166 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 882884008167 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884008168 ATP binding site [chemical binding]; other site 882884008169 Mg2+ binding site [ion binding]; other site 882884008170 G-X-G motif; other site 882884008171 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 882884008172 ATP binding site [chemical binding]; other site 882884008173 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 882884008174 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 882884008175 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 882884008176 active site 882884008177 metal binding site [ion binding]; metal-binding site 882884008178 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 882884008179 putative carbohydrate kinase; Provisional; Region: PRK10565 882884008180 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 882884008181 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 882884008182 putative substrate binding site [chemical binding]; other site 882884008183 putative ATP binding site [chemical binding]; other site 882884008184 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 882884008185 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 882884008186 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 882884008187 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...; Region: PBPb; cd00134 882884008188 substrate binding pocket [chemical binding]; other site 882884008189 membrane-bound complex binding site; other site 882884008190 hinge residues; other site 882884008191 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 882884008192 putative active site [active] 882884008193 putative substrate binding site [chemical binding]; other site 882884008194 catalytic site [active] 882884008195 dimer interface [polypeptide binding]; other site 882884008196 GTPase RsgA; Reviewed; Region: PRK12288 882884008197 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence...; Region: YjeQ_engC; cd01854 882884008198 GTPase/OB domain interface [polypeptide binding]; other site 882884008199 GTPase/Zn-binding domain interface [polypeptide binding]; other site 882884008200 GTP/Mg2+ binding site [chemical binding]; other site 882884008201 G4 box; other site 882884008202 G5 box; other site 882884008203 G1 box; other site 882884008204 Switch I region; other site 882884008205 G2 box; other site 882884008206 G3 box; other site 882884008207 Switch II region; other site 882884008208 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 882884008209 putative mechanosensitive channel protein; Provisional; Region: PRK10929 882884008210 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 882884008211 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 882884008212 Mechanosensitive ion channel; Region: MS_channel; pfam00924 882884008213 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 882884008214 poxB regulator PoxA; Provisional; Region: PRK09350 882884008215 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 882884008216 motif 1; other site 882884008217 dimer interface [polypeptide binding]; other site 882884008218 active site 882884008219 motif 2; other site 882884008220 motif 3; other site 882884008221 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 882884008222 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 882884008223 domain; Region: Succ_DH_flav_C; pfam02910 882884008224 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 882884008225 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 882884008226 D-subunit interface [polypeptide binding]; other site 882884008227 Iron-sulfur protein interface; other site 882884008228 proximal quinone binding site [chemical binding]; other site 882884008229 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 882884008230 Iron-sulfur protein interface; other site 882884008231 proximal quinone binding site [chemical binding]; other site 882884008232 C-subunit interface; other site 882884008233 distal quinone binding site; other site 882884008234 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 882884008235 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 882884008236 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 882884008237 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...; Region: LuxR_C_like; cd06170 882884008238 DNA binding residues [nucleotide binding] 882884008239 dimerization interface [polypeptide binding]; other site 882884008240 elongation factor P; Validated; Region: PRK00529 882884008241 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 882884008242 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 882884008243 RNA binding site [nucleotide binding]; other site 882884008244 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 882884008245 RNA binding site [nucleotide binding]; other site 882884008246 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 882884008247 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 882884008248 FeS/SAM binding site; other site 882884008249 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 882884008250 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 882884008251 ring oligomerisation interface [polypeptide binding]; other site 882884008252 ATP/Mg binding site [chemical binding]; other site 882884008253 stacking interactions; other site 882884008254 hinge regions; other site 882884008255 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...; Region: cpn10; cd00320 882884008256 oligomerisation interface [polypeptide binding]; other site 882884008257 mobile loop; other site 882884008258 roof hairpin; other site 882884008259 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 882884008260 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 882884008261 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 882884008262 Aspartase; Region: Aspartase; cd01357 882884008263 active sites [active] 882884008264 tetramer interface [polypeptide binding]; other site 882884008265 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 882884008266 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 882884008267 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 882884008268 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 882884008269 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 882884008270 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 882884008271 DsbD alpha interface [polypeptide binding]; other site 882884008272 catalytic residues [active] 882884008273 putative transcriptional regulator; Provisional; Region: PRK11640 882884008274 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 882884008275 integrase; Provisional; Region: PRK09692 882884008276 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 882884008277 active site 882884008278 Int/Topo IB signature motif; other site 882884008279 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 882884008280 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 882884008281 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 882884008282 Predicted transcriptional regulator [Transcription]; Region: Nlp; cl01357 882884008283 Ash protein family; Region: Phage_ASH; pfam10554 882884008284 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 882884008285 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884008286 Walker A motif; other site 882884008287 ATP binding site [chemical binding]; other site 882884008288 Walker B motif; other site 882884008289 Divergent AAA domain; Region: AAA_4; pfam04326 882884008290 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 882884008291 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg3; cd01282 882884008292 DNA binding residues [nucleotide binding] 882884008293 putative dimer interface [polypeptide binding]; other site 882884008294 EthD protein; Region: EthD; cl06234 882884008295 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; cl01116 882884008296 AraC family transcriptional regulator; Provisional; Region: PRK15186 882884008297 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...; Region: LuxR_C_like; cd06170 882884008298 DNA binding residues [nucleotide binding] 882884008299 dimerization interface [polypeptide binding]; other site 882884008300 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 882884008301 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884008302 Walker A/P-loop; other site 882884008303 ATP binding site [chemical binding]; other site 882884008304 Q-loop/lid; other site 882884008305 ABC transporter signature motif; other site 882884008306 Walker B; other site 882884008307 D-loop; other site 882884008308 H-loop/switch region; other site 882884008309 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 882884008310 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 882884008311 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 882884008312 phosphodiesterase; Provisional; Region: PRK12704 882884008313 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3204 882884008314 SdiA-regulated; Region: SdiA-regulated; cd09971 882884008315 putative active site [active] 882884008316 Domain of unknown function (DUF1996); Region: DUF1996; pfam09362 882884008317 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 882884008318 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl04869 882884008319 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 882884008320 DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 882884008321 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted N-...; Region: MopB_DmsA-EC; cd02770 882884008322 putative [Fe4-S4] binding site [ion binding]; other site 882884008323 putative molybdopterin cofactor binding site [chemical binding]; other site 882884008324 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted N-...; Region: MopB_CT_DmsA-EC; cd02794 882884008325 putative molybdopterin cofactor binding site; other site 882884008326 sensory histidine kinase DcuS; Provisional; Region: PRK11086 882884008327 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 882884008328 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884008329 ATP binding site [chemical binding]; other site 882884008330 Mg2+ binding site [ion binding]; other site 882884008331 G-X-G motif; other site 882884008332 DNA-binding transcriptional activator DcuR; Provisional; Region: PRK10430 882884008333 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884008334 active site 882884008335 phosphorylation site [posttranslational modification] 882884008336 intermolecular recognition site; other site 882884008337 dimerization interface [polypeptide binding]; other site 882884008338 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 882884008339 fumarate hydratase; Provisional; Region: PRK15389 882884008340 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 882884008341 Fumarase C-terminus; Region: Fumerase_C; cl00795 882884008342 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 882884008343 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 882884008344 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 882884008345 ABC transporter; Region: ABC_tran_2; pfam12848 882884008346 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 882884008347 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 882884008348 H+ Antiporter protein; Region: 2A0121; TIGR00900 882884008349 putative substrate translocation pore; other site 882884008350 Cupin superfamily protein; Region: Cupin_4; pfam08007 882884008351 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884008352 ATP binding site [chemical binding]; other site 882884008353 substrate interface [chemical binding]; other site 882884008354 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 882884008355 JmjC domain; Region: JmjC; pfam02373 882884008356 melibiose:sodium symporter; Provisional; Region: PRK10429 882884008357 putative transporter; Provisional; Region: PRK11462 882884008358 alpha-galactosidase; Provisional; Region: PRK15076 882884008359 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 882884008360 NAD binding site [chemical binding]; other site 882884008361 sugar binding site [chemical binding]; other site 882884008362 divalent metal binding site [ion binding]; other site 882884008363 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 882884008364 dimer interface [polypeptide binding]; other site 882884008365 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 882884008366 arginine decarboxylase; Provisional; Region: PRK15029 882884008367 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 882884008368 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and...; Region: Orn_deC_like; cd00615 882884008369 homodimer interface [polypeptide binding]; other site 882884008370 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884008371 catalytic residue [active] 882884008372 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 882884008373 DNA-binding transcriptional regulator GadX; Provisional; Region: PRK09978 882884008374 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882884008375 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 882884008376 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 882884008377 putative metal dependent hydrolase; Provisional; Region: PRK11598 882884008378 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 882884008379 Sulfatase; Region: Sulfatase; cl10460 882884008380 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 882884008381 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884008382 active site 882884008383 phosphorylation site [posttranslational modification] 882884008384 intermolecular recognition site; other site 882884008385 dimerization interface [polypeptide binding]; other site 882884008386 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...; Region: trans_reg_C; cd00383 882884008387 DNA binding site [nucleotide binding] 882884008388 sensor protein BasS/PmrB; Provisional; Region: PRK10755 882884008389 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 connected by an extended linker. The...; Region: HAMP; cl01054 882884008390 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 trans-...; Region: HisKA; cd00082 882884008391 dimer interface [polypeptide binding]; other site 882884008392 phosphorylation site [posttranslational modification] 882884008393 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884008394 ATP binding site [chemical binding]; other site 882884008395 Mg2+ binding site [ion binding]; other site 882884008396 G-X-G motif; other site 882884008397 proline/glycine betaine transporter; Provisional; Region: PRK10642 882884008398 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 882884008399 putative substrate translocation pore; other site 882884008400 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 882884008401 PhnA protein; Region: PhnA; pfam03831 882884008402 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 882884008403 dimer interface [polypeptide binding]; other site 882884008404 phosphonate/organophosphate ester transporter subunit; Provisional; Region: PRK09984 882884008405 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 882884008406 Walker A/P-loop; other site 882884008407 ATP binding site [chemical binding]; other site 882884008408 Q-loop/lid; other site 882884008409 ABC transporter signature motif; other site 882884008410 Walker B; other site 882884008411 D-loop; other site 882884008412 H-loop/switch region; other site 882884008413 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 882884008414 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884008415 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 882884008416 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...; Region: TM_PBP2; cd06261 882884008417 dimer interface [polypeptide binding]; other site 882884008418 conserved gate region; other site 882884008419 putative PBP binding loops; other site 882884008420 ABC-ATPase subunit interface; other site 882884008421 Phosphonate metabolism protein PhnG; Region: PhnG; cl01454 882884008422 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; cl01455 882884008423 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; cl01456 882884008424 Phosphonate metabolism protein PhnJ; Region: PhnJ; cl01457 882884008425 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 882884008426 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 882884008427 Walker A/P-loop; other site 882884008428 ATP binding site [chemical binding]; other site 882884008429 Q-loop/lid; other site 882884008430 ABC transporter signature motif; other site 882884008431 Walker B; other site 882884008432 D-loop; other site 882884008433 H-loop/switch region; other site 882884008434 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 882884008435 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 882884008436 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 882884008437 Walker A/P-loop; other site 882884008438 ATP binding site [chemical binding]; other site 882884008439 Q-loop/lid; other site 882884008440 ABC transporter signature motif; other site 882884008441 Walker B; other site 882884008442 D-loop; other site 882884008443 H-loop/switch region; other site 882884008444 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 882884008445 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...; Region: metallo-dependent_hydrolases; cl00281 882884008446 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 882884008447 active site 882884008448 Guanylate kinase; Region: Guanylate_kin; cl12021 882884008449 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 882884008450 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 882884008451 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 882884008452 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 882884008453 multidrug resistance protein MdtN; Provisional; Region: PRK10476 882884008454 multidrug efflux system protein MdtO; Provisional; Region: PRK11427 882884008455 putative outer membrane efflux protein MdtP; Provisional; Region: PRK09915 882884008456 Outer membrane efflux protein; Region: OEP; pfam02321 882884008457 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 882884008458 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 882884008459 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 882884008460 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 882884008461 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl01295 882884008462 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 882884008463 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 alpha-; Region: HCP_like; cl14655 882884008464 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 882884008465 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; cl10556 882884008466 Formate-dependent nitrite reductase, periplasmic cytochrome c552 subunit [Inorganic ion transport and metabolism]; Region: NrfA; COG3303 882884008467 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; cl10556 882884008468 acetyl-CoA synthetase; Provisional; Region: PRK00174 882884008469 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 882884008470 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 882884008471 Protein of unknown function, DUF485; Region: DUF485; cl01231 882884008472 Sodium:solute symporter family; Region: SSF; cl00456 882884008473 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 882884008474 LrgB-like family; Region: LrgB; cl00596 882884008475 LrgA family; Region: LrgA; cl00608 882884008476 Transcriptional regulator [Transcription]; Region: LysR; COG0583 882884008477 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884008478 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 882884008479 putative dimerization interface [polypeptide binding]; other site 882884008480 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 882884008481 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 882884008482 Sulfate transporter family; Region: Sulfate_transp; cl00967 882884008483 Permease family; Region: Xan_ur_permease; pfam00860 882884008484 redox-sensitivie transcriptional activator SoxR; Provisional; Region: PRK15002 882884008485 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 882884008486 DNA binding residues [nucleotide binding] 882884008487 dimer interface [polypeptide binding]; other site 882884008488 [2Fe-2S] cluster binding site [ion binding]; other site 882884008489 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 882884008490 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882884008491 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 882884008492 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882884008493 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 882884008494 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884008495 Walker A/P-loop; other site 882884008496 ATP binding site [chemical binding]; other site 882884008497 Q-loop/lid; other site 882884008498 ABC transporter signature motif; other site 882884008499 Walker B; other site 882884008500 D-loop; other site 882884008501 H-loop/switch region; other site 882884008502 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 882884008503 Protein of unknown function (DUF3607); Region: DUF3607; pfam12245 882884008504 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 882884008505 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 882884008506 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 882884008507 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 882884008508 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 882884008509 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 882884008510 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 882884008511 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 882884008512 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 882884008513 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 882884008514 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 882884008515 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 882884008516 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 882884008517 Outer membrane efflux protein; Region: OEP; pfam02321 882884008518 Outer membrane efflux protein; Region: OEP; pfam02321 882884008519 hypothetical protein; Validated; Region: PRK09039 882884008520 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 882884008521 dimer interface [polypeptide binding]; other site 882884008522 ssDNA binding site [nucleotide binding]; other site 882884008523 tetramer (dimer of dimers) interface [polypeptide binding]; other site 882884008524 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 882884008525 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 882884008526 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 882884008527 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 882884008528 Protein of unknown function (DUF419); Region: DUF419; cl09948 882884008529 Uncharacterised protein family UPF0047; Region: UPF0047; cl00439 882884008530 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; cl11391 882884008531 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 882884008532 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884008533 homodimer interface [polypeptide binding]; other site 882884008534 catalytic residue [active] 882884008535 alanine racemase; Reviewed; Region: alr; PRK00053 882884008536 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 882884008537 active site 882884008538 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 882884008539 substrate binding site [chemical binding]; other site 882884008540 catalytic residues [active] 882884008541 dimer interface [polypeptide binding]; other site 882884008542 replicative DNA helicase; Provisional; Region: PRK08006 882884008543 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 882884008544 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 882884008545 Walker A motif; other site 882884008546 ATP binding site [chemical binding]; other site 882884008547 Walker B motif; other site 882884008548 DNA binding loops [nucleotide binding] 882884008549 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 882884008550 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 882884008551 NADP binding site [chemical binding]; other site 882884008552 dimer interface [polypeptide binding]; other site 882884008553 Phage shock protein G (Phageshock_PspG); Region: Phageshock_PspG; cl11511 882884008554 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 882884008555 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...; Region: DUS_like_FMN; cd02801 882884008556 FMN binding site [chemical binding]; other site 882884008557 active site 882884008558 catalytic residues [active] 882884008559 substrate binding site [chemical binding]; other site 882884008560 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 882884008561 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 882884008562 catalytic Zn binding site [ion binding]; other site 882884008563 structural Zn binding site [ion binding]; other site 882884008564 NAD(P) binding site [chemical binding]; other site 882884008565 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 882884008566 metal binding site 2 [ion binding]; metal-binding site 882884008567 putative DNA binding helix; other site 882884008568 metal binding site 1 [ion binding]; metal-binding site 882884008569 dimer interface [polypeptide binding]; other site 882884008570 structural Zn2+ binding site [ion binding]; other site 882884008571 CsbD-like; Region: CsbD; cl01272 882884008572 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 882884008573 MatE; Region: MatE; pfam01554 882884008574 MatE; Region: MatE; pfam01554 882884008575 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884008576 LexA repressor; Validated; Region: PRK00215 882884008577 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 (...; Region: S24_LexA-like; cd06529 882884008578 Catalytic site [active] 882884008579 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 882884008580 Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]; Region: PlsB; COG2937 882884008581 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 882884008582 putative acyl-acceptor binding pocket; other site 882884008583 UbiA prenyltransferase family; Region: UbiA; cl00337 882884008584 Chorismate lyase; Region: Chor_lyase; cl01230 882884008585 Maltose operon periplasmic protein precursor (MalM); Region: MalM; cl11647 882884008586 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel beta-...; Region: Maltoporin-like; cd01346 882884008587 trimer interface; other site 882884008588 sugar binding site [chemical binding]; other site 882884008589 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 882884008590 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 882884008591 Walker A/P-loop; other site 882884008592 ATP binding site [chemical binding]; other site 882884008593 Q-loop/lid; other site 882884008594 ABC transporter signature motif; other site 882884008595 Walker B; other site 882884008596 D-loop; other site 882884008597 H-loop/switch region; other site 882884008598 TOBE domain; Region: TOBE_2; cl01440 882884008599 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 882884008600 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884008601 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...; Region: TM_PBP2; cd06261 882884008602 dimer interface [polypeptide binding]; other site 882884008603 conserved gate region; other site 882884008604 putative PBP binding loops; other site 882884008605 ABC-ATPase subunit interface; other site 882884008606 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 882884008607 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...; Region: TM_PBP2; cd06261 882884008608 dimer interface [polypeptide binding]; other site 882884008609 conserved gate region; other site 882884008610 putative PBP binding loops; other site 882884008611 ABC-ATPase subunit interface; other site 882884008612 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 882884008613 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 882884008614 Phosphate-starvation-inducible E; Region: PsiE; cl01264 882884008615 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 882884008616 SLBB-domain like (DUF1017); Region: DUF1017; pfam06251 882884008617 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 882884008618 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 882884008619 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 882884008620 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 882884008621 active site 882884008622 dimer interface [polypeptide binding]; other site 882884008623 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 882884008624 dimer interface [polypeptide binding]; other site 882884008625 active site 882884008626 aspartate kinase III; Validated; Region: PRK09084 882884008627 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 882884008628 nucleotide binding site [chemical binding]; other site 882884008629 substrate binding site [chemical binding]; other site 882884008630 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 882884008631 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 882884008632 dimer interface [polypeptide binding]; other site 882884008633 YjbD family (DUF3811); Region: DUF3811; cl08125 882884008634 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 882884008635 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 882884008636 RNA binding surface [nucleotide binding]; other site 882884008637 PseudoU_synth_RluF_like: Pseudouridine synthase, Escherichia coli RluF like. This group is comprised of bacterial proteins similar to Escherichia coli RluF. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluF; cd02554 882884008638 probable active site [active] 882884008639 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 882884008640 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 882884008641 active site pocket [active] 882884008642 oxyanion hole [active] 882884008643 catalytic triad [active] 882884008644 active site nucleophile [active] 882884008645 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 882884008646 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 882884008647 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 882884008648 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; cl14105 882884008649 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 882884008650 substrate binding pocket [chemical binding]; other site 882884008651 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 882884008652 B12 binding site [chemical binding]; other site 882884008653 cobalt ligand [ion binding]; other site 882884008654 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 882884008655 transcriptional repressor IclR; Provisional; Region: PRK11569 882884008656 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884008657 Bacterial transcriptional regulator; Region: IclR; pfam01614 882884008658 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; cl01891 882884008659 isocitrate lyase; Provisional; Region: PRK06498 882884008660 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 882884008661 tetramer interface [polypeptide binding]; other site 882884008662 active site 882884008663 Mg2+/Mn2+ binding site [ion binding]; other site 882884008664 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 882884008665 malate synthase A; Region: malate_syn_A; TIGR01344 882884008666 active site 882884008667 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 882884008668 proposed active site lysine [active] 882884008669 conserved cys residue [active] 882884008670 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 882884008671 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 882884008672 Coenzyme A binding pocket [chemical binding]; other site 882884008673 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 882884008674 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 5-aminoimidazole-4-carboxamide-; Region: IMPCH; cd01421 882884008675 purine monophosphate binding site [chemical binding]; other site 882884008676 dimer interface [polypeptide binding]; other site 882884008677 putative catalytic residues [active] 882884008678 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 882884008679 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 882884008680 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 882884008681 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 882884008682 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 882884008683 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 882884008684 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884008685 active site 882884008686 phosphorylation site [posttranslational modification] 882884008687 intermolecular recognition site; other site 882884008688 dimerization interface [polypeptide binding]; other site 882884008689 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...; Region: AAA; cd00009 882884008690 Walker A motif; other site 882884008691 ATP binding site [chemical binding]; other site 882884008692 Walker B motif; other site 882884008693 arginine finger; other site 882884008694 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 882884008695 sensor protein ZraS; Provisional; Region: PRK10364 882884008696 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 trans-...; Region: HisKA; cd00082 882884008697 dimer interface [polypeptide binding]; other site 882884008698 phosphorylation site [posttranslational modification] 882884008699 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884008700 ATP binding site [chemical binding]; other site 882884008701 Mg2+ binding site [ion binding]; other site 882884008702 G-X-G motif; other site 882884008703 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 882884008704 dimer interface [polypeptide binding]; other site 882884008705 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 882884008706 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 higher-...; Region: HU_IHF; cd00591 882884008707 IHF dimer interface [polypeptide binding]; other site 882884008708 IHF - DNA interface [nucleotide binding]; other site 882884008709 Protein of unknown function (DUF416); Region: DUF416; cl01166 882884008710 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 882884008711 Active_site [active] 882884008712 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...; Region: URO-D; cd00717 882884008713 substrate binding site [chemical binding]; other site 882884008714 active site 882884008715 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 882884008716 putative NADH binding site [chemical binding]; other site 882884008717 putative active site [active] 882884008718 nudix motif; other site 882884008719 putative metal binding site [ion binding]; other site 882884008720 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; cl11478 882884008721 TPP riboswitch (THI element) 882884008722 ThiC family; Region: ThiC; cl08031 882884008723 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- (beta-...; Region: TMP_TenI; cd00564 882884008724 thiamine phosphate binding site [chemical binding]; other site 882884008725 active site 882884008726 pyrophosphate binding site [ion binding]; other site 882884008727 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...; Region: ThiF_MoeB_HesA_family; cd00757 882884008728 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 882884008729 ATP binding site [chemical binding]; other site 882884008730 substrate interface [chemical binding]; other site 882884008731 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 882884008732 thiS-thiF/thiG interaction site; other site 882884008733 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 882884008734 ThiS interaction site; other site 882884008735 putative active site [active] 882884008736 tetramer interface [polypeptide binding]; other site 882884008737 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 882884008738 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 882884008739 FeS/SAM binding site; other site 882884008740 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 882884008741 type III secretion system protein; Provisional; Region: PRK15384; cl14665 882884008742 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 882884008743 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 882884008744 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 882884008745 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 882884008746 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 882884008747 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 882884008748 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 882884008749 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 882884008750 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 882884008751 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 882884008752 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 882884008753 DNA binding site [nucleotide binding] 882884008754 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 882884008755 pectinesterase family protein; Region: PLN02916 882884008756 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 882884008757 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 882884008758 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 882884008759 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 882884008760 RPB11 interaction site [polypeptide binding]; other site 882884008761 RPB12 interaction site [polypeptide binding]; other site 882884008762 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 882884008763 RPB3 interaction site [polypeptide binding]; other site 882884008764 RPB1 interaction site [polypeptide binding]; other site 882884008765 RPB11 interaction site [polypeptide binding]; other site 882884008766 RPB10 interaction site [polypeptide binding]; other site 882884008767 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 882884008768 core dimer interface [polypeptide binding]; other site 882884008769 peripheral dimer interface [polypeptide binding]; other site 882884008770 L10 interface [polypeptide binding]; other site 882884008771 L11 interface [polypeptide binding]; other site 882884008772 putative EF-Tu interaction site [polypeptide binding]; other site 882884008773 putative EF-G interaction site [polypeptide binding]; other site 882884008774 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...; Region: Ribosomal_L10; cd05797 882884008775 23S rRNA interface [nucleotide binding]; other site 882884008776 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 882884008777 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...; Region: Ribosomal_L1; cd00403 882884008778 mRNA/rRNA interface [nucleotide binding]; other site 882884008779 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 882884008780 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 882884008781 23S rRNA interface [nucleotide binding]; other site 882884008782 L7/L12 interface [polypeptide binding]; other site 882884008783 putative thiostrepton binding site; other site 882884008784 L25 interface [polypeptide binding]; other site 882884008785 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 882884008786 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 882884008787 putative homodimer interface [polypeptide binding]; other site 882884008788 KOW (Kyprides, Ouzounis, Woese) motif; Region: KOW; smart00739 882884008789 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 882884008790 elongation factor Tu; Reviewed; Region: PRK00049 882884008791 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 882884008792 G1 box; other site 882884008793 GEF interaction site [polypeptide binding]; other site 882884008794 GTP/Mg2+ binding site [chemical binding]; other site 882884008795 Switch I region; other site 882884008796 G2 box; other site 882884008797 G3 box; other site 882884008798 Switch II region; other site 882884008799 G4 box; other site 882884008800 G5 box; other site 882884008801 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 882884008802 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 882884008803 Antibiotic Binding Site [chemical binding]; other site 882884008804 pantothenate kinase; Provisional; Region: PRK05439 882884008805 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in...; Region: PanK; cd02025 882884008806 ATP-binding site [chemical binding]; other site 882884008807 CoA-binding site [chemical binding]; other site 882884008808 Mg2+-binding site [ion binding]; other site 882884008809 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884008810 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 882884008811 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 882884008812 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 882884008813 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 882884008814 FAD binding domain; Region: FAD_binding_4; pfam01565 882884008815 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 882884008816 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 882884008817 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 882884008818 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 882884008819 N-terminal plug; other site 882884008820 ligand-binding site [chemical binding]; other site 882884008821 cobalamin riboswitch 882884008822 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 882884008823 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 882884008824 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 882884008825 Protein of unknown function (DUF1422); Region: DUF1422; cl11649 882884008826 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 882884008827 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 882884008828 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 882884008829 thioredoxin reductase; Provisional; Region: PTZ00052 882884008830 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 882884008831 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 882884008832 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884008833 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 882884008834 dimerization interface [polypeptide binding]; other site 882884008835 argininosuccinate lyase; Provisional; Region: PRK04833 882884008836 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 882884008837 active sites [active] 882884008838 tetramer interface [polypeptide binding]; other site 882884008839 AAK_NAGK-NC: N-Acetyl-L-glutamate kinase - noncyclic (NAGK-NC) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of microbial arginine biosynthesis using the acetylated, noncyclic route of...; Region: AAK_NAGK-NC; cd04249 882884008840 nucleotide binding site [chemical binding]; other site 882884008841 N-acetyl-L-glutamate binding site [chemical binding]; other site 882884008842 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 882884008843 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884008844 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 882884008845 acetylornithine deacetylase; Provisional; Region: PRK05111 882884008846 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 882884008847 metal binding site [ion binding]; metal-binding site 882884008848 putative dimer interface [polypeptide binding]; other site 882884008849 Phosphoenolpyruvate carboxylase [Carbohydrate transport and metabolism; Energy production and conversion]; Region: COG1892; cl14656 882884008850 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 882884008851 hypothetical protein; Provisional; Region: PRK10649 882884008852 Sulfatase; Region: Sulfatase; cl10460 882884008853 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 882884008854 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882884008855 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 882884008856 active site 882884008857 intersubunit interactions; other site 882884008858 catalytic residue [active] 882884008859 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 882884008860 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 882884008861 dimer interface [polypeptide binding]; other site 882884008862 active site 882884008863 metal binding site [ion binding]; metal-binding site 882884008864 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 882884008865 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 882884008866 heme binding site [chemical binding]; other site 882884008867 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 882884008868 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 882884008869 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...; Region: MTHFR; cd00537 882884008870 FAD binding site [chemical binding]; other site 882884008871 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 882884008872 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 882884008873 active site 882884008874 metal binding site [ion binding]; metal-binding site 882884008875 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 882884008876 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 882884008877 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli AKI-...; Region: AAK_AK-HSDH; cd04257 882884008878 putative catalytic residues [active] 882884008879 putative nucleotide binding site [chemical binding]; other site 882884008880 putative aspartate binding site [chemical binding]; other site 882884008881 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like_2; cd04892 882884008882 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884008883 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 882884008884 cystathionine gamma-synthase; Provisional; Region: PRK08045 882884008885 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 882884008886 homodimer interface [polypeptide binding]; other site 882884008887 substrate-cofactor binding pocket; other site 882884008888 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884008889 catalytic residue [active] 882884008890 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox' sequence; Region: Met_repressor_MetJ; cd00490 882884008891 dimerization interface [polypeptide binding]; other site 882884008892 DNA binding site [nucleotide binding] 882884008893 corepressor binding sites; other site 882884008894 putative transporter; Provisional; Region: PRK11462 882884008895 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 882884008896 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 882884008897 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 882884008898 primosome assembly protein PriA; Validated; Region: PRK05580 882884008899 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 882884008900 ATP binding site [chemical binding]; other site 882884008901 putative Mg++ binding site [ion binding]; other site 882884008902 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; cl14882 882884008903 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 882884008904 DNA binding site [nucleotide binding] 882884008905 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 882884008906 domain linker motif; other site 882884008907 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 882884008908 dimerization interface [polypeptide binding]; other site 882884008909 ligand binding site [chemical binding]; other site 882884008910 cell division protein FtsN; Provisional; Region: PRK12757 882884008911 Sporulation related domain; Region: SPOR; cl10051 882884008912 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 882884008913 active site 882884008914 HslU subunit interaction site [polypeptide binding]; other site 882884008915 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 882884008916 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...; Region: AAA; cd00009 882884008917 Walker A motif; other site 882884008918 ATP binding site [chemical binding]; other site 882884008919 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884008920 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; COG1575 882884008921 UbiA prenyltransferase family; Region: UbiA; cl00337 882884008922 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 882884008923 Protein of unknown function (DUF904); Region: DUF904; cl11531 882884008924 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-...; Region: MIP; cd00333 882884008925 amphipathic channel; other site 882884008926 Asn-Pro-Ala signature motifs; other site 882884008927 glycerol kinase; Provisional; Region: glpK; PRK00047 882884008928 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 882884008929 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 882884008930 Fructose-1,6-bisphosphatase/sedoheptulose 1,7-bisphosphatase and related proteins [Carbohydrate transport and metabolism]; Region: GlpX; COG1494 882884008931 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 882884008932 putative active site [active] 882884008933 ferredoxin-NADP reductase; Provisional; Region: PRK10926 882884008934 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 882884008935 FAD binding pocket [chemical binding]; other site 882884008936 FAD binding motif [chemical binding]; other site 882884008937 phosphate binding motif [ion binding]; other site 882884008938 beta-alpha-beta structure motif; other site 882884008939 NAD binding pocket [chemical binding]; other site 882884008940 Protein of unknown function (DUF805); Region: DUF805; cl01224 882884008941 Protein of unknown function (DUF1454); Region: DUF1454; pfam07305 882884008942 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 882884008943 substrate binding site [chemical binding]; other site 882884008944 dimer interface [polypeptide binding]; other site 882884008945 catalytic triad [active] 882884008946 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 882884008947 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 882884008948 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 882884008949 transmembrane helices; other site 882884008950 CDP-diacylglycerol pyrophosphatase; Region: CDH; cl00934 882884008951 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884008952 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 882884008953 6-phosphofructokinase; Provisional; Region: PRK03202 882884008954 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 882884008955 active site 882884008956 ADP/pyrophosphate binding site [chemical binding]; other site 882884008957 dimerization interface [polypeptide binding]; other site 882884008958 allosteric effector site; other site 882884008959 fructose-1,6-bisphosphate binding site; other site 882884008960 Cation efflux family; Region: Cation_efflux; cl00316 882884008961 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 882884008962 dimer interface [polypeptide binding]; other site 882884008963 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 882884008964 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884008965 active site 882884008966 intermolecular recognition site; other site 882884008967 dimerization interface [polypeptide binding]; other site 882884008968 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...; Region: trans_reg_C; cd00383 882884008969 DNA binding site [nucleotide binding] 882884008970 two-component sensor protein; Provisional; Region: cpxA; PRK09470 882884008971 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 connected by an extended linker. The...; Region: HAMP; cl01054 882884008972 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 trans-...; Region: HisKA; cd00082 882884008973 dimer interface [polypeptide binding]; other site 882884008974 phosphorylation site [posttranslational modification] 882884008975 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884008976 ATP binding site [chemical binding]; other site 882884008977 Mg2+ binding site [ion binding]; other site 882884008978 G-X-G motif; other site 882884008979 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 882884008980 MOSC domain; Region: MOSC; pfam03473 882884008981 3-alpha domain; Region: 3-alpha; pfam03475 882884008982 superoxide dismutase; Provisional; Region: PRK10925 882884008983 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 882884008984 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 882884008985 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 882884008986 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 882884008987 Integrase core domain; Region: rve; cl01316 882884008988 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 882884008989 RhaT L-rhamnose-proton symporter family protein; Region: RhaT; TIGR00776 882884008990 transcriptional activator RhaR; Provisional; Region: PRK13502 882884008991 Cupin domain; Region: Cupin_2; cl09118 882884008992 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882884008993 transcriptional activator RhaS; Provisional; Region: PRK13503 882884008994 Cupin domain; Region: Cupin_2; cl09118 882884008995 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882884008996 rhamnulokinase; Provisional; Region: rhaB; PRK10640 882884008997 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 882884008998 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 882884008999 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 882884009000 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 882884009001 intersubunit interface [polypeptide binding]; other site 882884009002 active site 882884009003 Zn2+ binding site [ion binding]; other site 882884009004 lactaldehyde reductase; Region: lactal_redase; TIGR02638 882884009005 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 882884009006 dimer interface [polypeptide binding]; other site 882884009007 active site 882884009008 metal binding site [ion binding]; metal-binding site 882884009009 Domain of unknown function (DUF718); Region: DUF718; cl01281 882884009010 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 882884009011 non-specific DNA binding site [nucleotide binding]; other site 882884009012 salt bridge; other site 882884009013 sequence-specific DNA binding site [nucleotide binding]; other site 882884009014 Cupin domain; Region: Cupin_2; cl09118 882884009015 AzlC protein; Region: AzlC; cl00570 882884009016 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 882884009017 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; cl00163 882884009018 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; cl00163 882884009019 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA...; Region: PTS_IIB_fructose; cd05569 882884009020 P-loop; other site 882884009021 active site 882884009022 phosphorylation site [posttranslational modification] 882884009023 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 882884009024 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 882884009025 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 882884009026 putative frv operon regulatory protein; Provisional; Region: PRK09863 882884009027 putative frv operon regulatory protein; Provisional; Region: PRK09863 882884009028 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 882884009029 HlyD family secretion protein; Region: HlyD; pfam00529 882884009030 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 882884009031 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_C39C; cd02419 882884009032 putative active site [active] 882884009033 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 882884009034 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884009035 Walker A/P-loop; other site 882884009036 ATP binding site [chemical binding]; other site 882884009037 Q-loop/lid; other site 882884009038 ABC transporter signature motif; other site 882884009039 Walker B; other site 882884009040 D-loop; other site 882884009041 H-loop/switch region; other site 882884009042 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 882884009043 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 882884009044 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 882884009045 ligand binding site [chemical binding]; other site 882884009046 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 882884009047 Xylella fastidiosa surface protein related; Region: X_fast-SP_rel; pfam06669 882884009048 YadA-like C-terminal region; Region: YadA; pfam03895 882884009049 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 882884009050 Fe-S containing; Region: FDH-beta; TIGR01582 882884009051 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 882884009052 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 882884009053 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564; cl11689 882884009054 Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]; Region: FdhE; COG3058 882884009055 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 882884009056 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 882884009057 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 882884009058 substrate binding pocket [chemical binding]; other site 882884009059 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 882884009060 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 882884009061 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...; Region: Dtyr_deacylase; cd00563 882884009062 putative active site [active] 882884009063 dimerization interface [polypeptide binding]; other site 882884009064 putative tRNAtyr binding site [nucleotide binding]; other site 882884009065 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 882884009066 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 882884009067 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 882884009068 motif II; other site 882884009069 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 882884009070 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884009071 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 882884009072 Ribokinase-like subgroup B. Found in bacteria and plants, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_B; cd01945 882884009073 substrate binding site [chemical binding]; other site 882884009074 ATP binding site [chemical binding]; other site 882884009075 NADH-dependent gamma-hydroxybutyrate dehydrogenase; Provisional; Region: PRK15461 882884009076 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884009077 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 882884009078 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 882884009079 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 882884009080 dimerization interface [polypeptide binding]; other site 882884009081 putative active cleft [active] 882884009082 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 882884009083 Aldose 1-epimerase, similar to Escherichia coli YihR; Region: Aldose_epim_Ec_YihR; cd09022 882884009084 active site 882884009085 catalytic residues [active] 882884009086 alpha-glucosidase; Provisional; Region: PRK10426 882884009087 YihQ is a bacterial alpha-glucosidase with a conserved glycosyl hydrolase family 31 (GH31) domain that catalyzes the release of an alpha-glucosyl residue from the non-reducing end of alpha-glucoside substrates such as alpha-glucosyl fluoride. Orthologs...; Region: GH31_glucosidase_YihQ; cd06594 882884009088 putative active site [active] 882884009089 putative catalytic site [active] 882884009090 putative transporter; Provisional; Region: PRK11462 882884009091 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 882884009092 putative transporter; Provisional; Region: PRK11462 882884009093 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 882884009094 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 882884009095 GTP-binding protein; Provisional; Region: PRK10218 882884009096 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 882884009097 G1 box; other site 882884009098 putative GEF interaction site [polypeptide binding]; other site 882884009099 GTP/Mg2+ binding site [chemical binding]; other site 882884009100 Switch I region; other site 882884009101 G2 box; other site 882884009102 G3 box; other site 882884009103 Switch II region; other site 882884009104 G4 box; other site 882884009105 G5 box; other site 882884009106 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 882884009107 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...; Region: BipA_TypA_C; cd03710 882884009108 glutamine synthetase; Provisional; Region: glnA; PRK09469 882884009109 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 882884009110 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 882884009111 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 882884009112 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 882884009113 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 trans-...; Region: HisKA; cd00082 882884009114 dimer interface [polypeptide binding]; other site 882884009115 phosphorylation site [posttranslational modification] 882884009116 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884009117 ATP binding site [chemical binding]; other site 882884009118 Mg2+ binding site [ion binding]; other site 882884009119 G-X-G motif; other site 882884009120 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 882884009121 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884009122 active site 882884009123 phosphorylation site [posttranslational modification] 882884009124 intermolecular recognition site; other site 882884009125 dimerization interface [polypeptide binding]; other site 882884009126 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...; Region: AAA; cd00009 882884009127 Walker A motif; other site 882884009128 ATP binding site [chemical binding]; other site 882884009129 Walker B motif; other site 882884009130 arginine finger; other site 882884009131 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 882884009132 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 882884009133 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 882884009134 FeS/SAM binding site; other site 882884009135 HemN C-terminal region; Region: HemN_C; pfam06969 882884009136 Protein of unknown function, DUF414; Region: DUF414; cl01172 882884009137 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 882884009138 G1 box; other site 882884009139 GTP/Mg2+ binding site [chemical binding]; other site 882884009140 Switch I region; other site 882884009141 G2 box; other site 882884009142 G3 box; other site 882884009143 Switch II region; other site 882884009144 G4 box; other site 882884009145 G5 box; other site 882884009146 DNA polymerase I; Provisional; Region: PRK05755 882884009147 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 882884009148 active site 882884009149 metal binding site 1 [ion binding]; metal-binding site 882884009150 putative 5' ssDNA interaction site; other site 882884009151 metal binding site 3; metal-binding site 882884009152 metal binding site 2 [ion binding]; metal-binding site 882884009153 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 882884009154 putative DNA binding site [nucleotide binding]; other site 882884009155 putative metal binding site [ion binding]; other site 882884009156 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 882884009157 active site 882884009158 catalytic site [active] 882884009159 substrate binding site [chemical binding]; other site 882884009160 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 882884009161 active site 882884009162 DNA binding site [nucleotide binding] 882884009163 catalytic site [active] 882884009164 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 882884009165 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 882884009166 putative acyl-acceptor binding pocket; other site 882884009167 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 882884009168 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 882884009169 catalytic residues [active] 882884009170 hinge region; other site 882884009171 alpha helical domain; other site 882884009172 Phosphotransferase enzyme family; Region: APH; pfam01636 882884009173 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 882884009174 active site 882884009175 ATP binding site [chemical binding]; other site 882884009176 Protein of unknown function (DUF1040); Region: DUF1040; cl01176 882884009177 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 882884009178 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 882884009179 GTP binding site [chemical binding]; other site 882884009180 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 882884009181 Walker A motif; other site 882884009182 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 882884009183 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 882884009184 Cation transport protein; Region: TrkH; cl10514 882884009185 hypothetical protein; Provisional; Region: PRK11568 882884009186 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 882884009187 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 882884009188 proline dipeptidase; Provisional; Region: PRK13607 882884009189 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action...; Region: Prolidase; cd01087 882884009190 active site 882884009191 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 882884009192 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 882884009193 substrate binding site [chemical binding]; other site 882884009194 oxyanion hole (OAH) forming residues; other site 882884009195 trimer interface [polypeptide binding]; other site 882884009196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884009197 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 882884009198 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 882884009199 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 882884009200 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 882884009201 dimer interface [polypeptide binding]; other site 882884009202 active site 882884009203 FMN reductase; Validated; Region: fre; PRK08051 882884009204 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD...; Region: flavin_oxioreductase; cd06189 882884009205 FAD binding pocket [chemical binding]; other site 882884009206 FAD binding motif [chemical binding]; other site 882884009207 phosphate binding motif [ion binding]; other site 882884009208 beta-alpha-beta structure motif; other site 882884009209 NAD binding pocket [chemical binding]; other site 882884009210 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 882884009211 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 882884009212 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 882884009213 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 882884009214 active site 882884009215 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 882884009216 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 882884009217 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 882884009218 sec-independent translocase; Provisional; Region: tatB; PRK00404 882884009219 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 882884009220 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 882884009221 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 882884009222 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 882884009223 SCP-2 sterol transfer family; Region: SCP2; cl01225 882884009224 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 882884009225 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 882884009226 S-adenosylmethionine binding site [chemical binding]; other site 882884009227 DNA recombination protein RmuC; Provisional; Region: PRK10361 882884009228 RmuC family; Region: RmuC; pfam02646 882884009229 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 882884009230 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 882884009231 Dienelactone hydrolase family; Region: DLH; pfam01738 882884009232 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 882884009233 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 882884009234 FeS/SAM binding site; other site 882884009235 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 882884009236 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 882884009237 N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in the production of methionine by...; Region: CIMS_N_terminal_like; cd03312 882884009238 THF binding site; other site 882884009239 C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in the production of methionine by...; Region: CIMS_C_terminal_like; cd03311 882884009240 substrate binding site [chemical binding]; other site 882884009241 THF binding site; other site 882884009242 zinc-binding site [ion binding]; other site 882884009243 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 882884009244 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884009245 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 882884009246 putative dimerization interface [polypeptide binding]; other site 882884009247 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 882884009248 EamA-like transporter family; Region: EamA; cl01037 882884009249 putative hydrolase; Provisional; Region: PRK10976 882884009250 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 882884009251 active site 882884009252 motif I; other site 882884009253 motif II; other site 882884009254 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; cl11391 882884009255 lysophospholipase L2; Provisional; Region: PRK10749 882884009256 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 882884009257 LysE type translocator; Region: LysE; cl00565 882884009258 LysE type translocator; Region: LysE; cl00565 882884009259 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 882884009260 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 882884009261 ATP binding site [chemical binding]; other site 882884009262 putative Mg++ binding site [ion binding]; other site 882884009263 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 882884009264 nucleotide binding region [chemical binding]; other site 882884009265 ATP-binding site [chemical binding]; other site 882884009266 RQC domain; Region: RQC; pfam09382 882884009267 HRDC domain; Region: HRDC; cl02578 882884009268 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among Gram-...; Region: OMPLA; cd00541 882884009269 dimerization interface [polypeptide binding]; other site 882884009270 substrate binding site [chemical binding]; other site 882884009271 active site 882884009272 calcium binding site [ion binding]; other site 882884009273 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 882884009274 CoenzymeA binding site [chemical binding]; other site 882884009275 subunit interaction site [polypeptide binding]; other site 882884009276 PHB binding site; other site 882884009277 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 882884009278 EamA-like transporter family; Region: EamA; cl01037 882884009279 Protein of unknown function (DUF3289); Region: DUF3289; cl11840 882884009280 Enterobacterial putative membrane protein (DUF943); Region: DUF943; pfam06092 882884009281 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 882884009282 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 882884009283 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 882884009284 UvrD/REP helicase; Region: UvrD-helicase; cl14126 882884009285 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 882884009286 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 882884009287 motif II; other site 882884009288 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 882884009289 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 of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 882884009290 Int/Topo IB signature motif; other site 882884009291 active site 882884009292 Protein of unknown function, DUF484; Region: DUF484; cl01228 882884009293 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 882884009294 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 882884009295 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 882884009296 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 882884009297 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in...; Region: Frataxin; cd00503 882884009298 putative iron binding site [ion binding]; other site 882884009299 adenylate cyclase; Provisional; Region: cyaA; PRK09450 882884009300 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 882884009301 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 882884009302 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 882884009303 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 882884009304 domain interfaces; other site 882884009305 active site 882884009306 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 882884009307 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...; Region: HemD; cd06578 882884009308 active site 882884009309 HemX; Region: HemX; cl14667 882884009310 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 882884009311 putative protoheme IX biogenesis protein; Provisional; Region: PRK10747 882884009312 HemY protein N-terminus; Region: HemY_N; pfam07219 882884009313 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 882884009314 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 882884009315 WzyE protein; Region: WzyE; cl11643 882884009316 4-alpha-L-fucosyltransferase (Fuc4NAc transferase); Region: Fuc4NAc_transf; cl07929 882884009317 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 882884009318 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 882884009319 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 882884009320 inhibitor-cofactor binding pocket; inhibition site 882884009321 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884009322 catalytic residue [active] 882884009323 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 882884009324 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 882884009325 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 882884009326 substrate binding site [chemical binding]; other site 882884009327 tetramer interface [polypeptide binding]; other site 882884009328 dTDP-glucose 4,6-dehydratase; Provisional; Region: PRK10217 882884009329 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 882884009330 NAD binding site [chemical binding]; other site 882884009331 substrate binding site [chemical binding]; other site 882884009332 homodimer interface [polypeptide binding]; other site 882884009333 active site 882884009334 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 882884009335 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 882884009336 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 882884009337 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 882884009338 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 882884009339 homodimer interface [polypeptide binding]; other site 882884009340 active site 882884009341 Chain length determinant protein; Region: Wzz; cl01623 882884009342 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 882884009343 Mg++ binding site [ion binding]; other site 882884009344 putative catalytic motif [active] 882884009345 substrate binding site [chemical binding]; other site 882884009346 transcription termination factor Rho; Provisional; Region: rho; PRK09376 882884009347 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 882884009348 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...; Region: Rho_CSD; cd04459 882884009349 RNA binding site [nucleotide binding]; other site 882884009350 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...; Region: rho_factor; cd01128 882884009351 multimer interface [polypeptide binding]; other site 882884009352 Walker A motif; other site 882884009353 ATP binding site [chemical binding]; other site 882884009354 Walker B motif; other site 882884009355 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 882884009356 catalytic residues [active] 882884009357 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 882884009358 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 882884009359 ATP binding site [chemical binding]; other site 882884009360 Mg++ binding site [ion binding]; other site 882884009361 motif III; other site 882884009362 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 882884009363 nucleotide binding region [chemical binding]; other site 882884009364 ATP-binding site [chemical binding]; other site 882884009365 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 882884009366 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 882884009367 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 882884009368 UvrD/REP helicase; Region: UvrD-helicase; cl14126 882884009369 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 882884009370 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 882884009371 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 882884009372 ligand binding site [chemical binding]; other site 882884009373 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 882884009374 flexible hinge region; other site 882884009375 PPIC-type PPIASE domain; Region: Rotamase; cl08278 882884009376 ketol-acid reductoisomerase; Validated; Region: PRK05225 882884009377 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884009378 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 882884009379 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 882884009380 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884009381 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 882884009382 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 882884009383 putative dimerization interface [polypeptide binding]; other site 882884009384 threonine dehydratase; Reviewed; Region: PRK09224 882884009385 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 882884009386 tetramer interface [polypeptide binding]; other site 882884009387 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884009388 catalytic residue [active] 882884009389 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 882884009390 putative Ile/Val binding site [chemical binding]; other site 882884009391 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 882884009392 putative Ile/Val binding site [chemical binding]; other site 882884009393 Dehydratase family; Region: ILVD_EDD; cl00340 882884009394 dihydroxy-acid dehydratase; Region: ilvD; TIGR00110 882884009395 branched-chain amino acid aminotransferase; Provisional; Region: PRK12479 882884009396 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 alpha-...; Region: BCAT_beta_family; cd01557 882884009397 homodimer interface [polypeptide binding]; other site 882884009398 substrate-cofactor binding pocket; other site 882884009399 catalytic residue [active] 882884009400 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 882884009401 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 882884009402 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 882884009403 PYR/PP interface [polypeptide binding]; other site 882884009404 dimer interface [polypeptide binding]; other site 882884009405 TPP binding site [chemical binding]; other site 882884009406 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 882884009407 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 882884009408 TPP-binding site [chemical binding]; other site 882884009409 dimer interface [polypeptide binding]; other site 882884009410 putative ATP-dependent protease; Provisional; Region: PRK09862 882884009411 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884009412 Protein of unknown function, DUF; Region: DUF413; cl10479 882884009413 transcriptional regulator HdfR; Provisional; Region: PRK03601 882884009414 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884009415 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884009416 Transcriptional regulators [Transcription]; Region: FadR; COG2186 882884009417 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882884009418 DNA-binding site [nucleotide binding]; DNA binding site 882884009419 FCD domain; Region: FCD; cl11656 882884009420 putative transporter; Provisional; Region: PRK10504 882884009421 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 882884009422 putative substrate translocation pore; other site 882884009423 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 882884009424 transcriptional repressor RbsR; Provisional; Region: PRK10423 882884009425 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 882884009426 DNA binding site [nucleotide binding] 882884009427 domain linker motif; other site 882884009428 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 882884009429 dimerization interface [polypeptide binding]; other site 882884009430 ligand binding site [chemical binding]; other site 882884009431 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of...; Region: ribokinase; cd01174 882884009432 substrate binding site [chemical binding]; other site 882884009433 dimer interface [polypeptide binding]; other site 882884009434 ATP binding site [chemical binding]; other site 882884009435 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 882884009436 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 882884009437 ligand binding site [chemical binding]; other site 882884009438 dimerization interface [polypeptide binding]; other site 882884009439 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 882884009440 TM-ABC transporter signature motif; other site 882884009441 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 882884009442 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and...; Region: ABC_Carb_Monos_I; cd03216 882884009443 Walker A/P-loop; other site 882884009444 ATP binding site [chemical binding]; other site 882884009445 Q-loop/lid; other site 882884009446 ABC transporter signature motif; other site 882884009447 Walker B; other site 882884009448 D-loop; other site 882884009449 H-loop/switch region; other site 882884009450 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (; Region: ABC_Carb_Monos_II; cd03215 882884009451 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 882884009452 K+ potassium transporter; Region: K_trans; cl01227 882884009453 potassium uptake protein; Region: kup; TIGR00794 882884009454 regulatory ATPase RavA; Provisional; Region: PRK13531 882884009455 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...; Region: AAA; cd00009 882884009456 Walker A motif; other site 882884009457 ATP binding site [chemical binding]; other site 882884009458 Walker B motif; other site 882884009459 arginine finger; other site 882884009460 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 882884009461 hypothetical protein; Provisional; Region: yieM; PRK10997 882884009462 VWA YIEM type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-...; Region: VWA_YIEM_type; cd01462 882884009463 metal ion-dependent adhesion site (MIDAS); other site 882884009464 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 882884009465 dimer interface [polypeptide binding]; other site 882884009466 active site 882884009467 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 882884009468 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884009469 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 882884009470 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; cl11520 882884009471 glucose-inhibited division protein A; Region: gidA; TIGR00136 882884009472 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 882884009473 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 882884009474 S-adenosylmethionine binding site [chemical binding]; other site 882884009475 ATP synthase I chain; Region: ATP_synt_I; cl09170 882884009476 ATP synthase A chain; Region: ATP-synt_A; cl00413 882884009477 ATP synthase subunit C; Region: ATP-synt_C; cl00466 882884009478 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 882884009479 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 882884009480 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 882884009481 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 882884009482 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 882884009483 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 882884009484 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 882884009485 beta subunit interaction interface [polypeptide binding]; other site 882884009486 Walker A motif; other site 882884009487 ATP binding site [chemical binding]; other site 882884009488 Walker B motif; other site 882884009489 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 882884009490 ATP synthase; Region: ATP-synt; cl00365 882884009491 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 882884009492 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 882884009493 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 882884009494 alpha subunit interaction interface [polypeptide binding]; other site 882884009495 Walker A motif; other site 882884009496 ATP binding site [chemical binding]; other site 882884009497 Walker B motif; other site 882884009498 inhibitor binding site; inhibition site 882884009499 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 882884009500 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 882884009501 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 882884009502 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 882884009503 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 882884009504 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 882884009505 Substrate binding site [chemical binding]; other site 882884009506 Mg++ binding site [ion binding]; other site 882884009507 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 882884009508 active site 882884009509 substrate binding site [chemical binding]; other site 882884009510 CoA binding site [chemical binding]; other site 882884009511 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 882884009512 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...; Region: GFAT; cd00714 882884009513 glutaminase active site [active] 882884009514 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 882884009515 dimer interface [polypeptide binding]; other site 882884009516 active site 882884009517 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 882884009518 dimer interface [polypeptide binding]; other site 882884009519 active site 882884009520 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884009521 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...; Region: TM_PBP2; cd06261 882884009522 dimer interface [polypeptide binding]; other site 882884009523 conserved gate region; other site 882884009524 putative PBP binding loops; other site 882884009525 ABC-ATPase subunit interface; other site 882884009526 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 882884009527 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...; Region: TM_PBP2; cd06261 882884009528 dimer interface [polypeptide binding]; other site 882884009529 conserved gate region; other site 882884009530 putative PBP binding loops; other site 882884009531 ABC-ATPase subunit interface; other site 882884009532 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 882884009533 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 882884009534 Walker A/P-loop; other site 882884009535 ATP binding site [chemical binding]; other site 882884009536 Q-loop/lid; other site 882884009537 ABC transporter signature motif; other site 882884009538 Walker B; other site 882884009539 D-loop; other site 882884009540 H-loop/switch region; other site 882884009541 transcriptional regulator PhoU; Provisional; Region: PRK11115 882884009542 PhoU domain; Region: PhoU; pfam01895 882884009543 PhoU domain; Region: PhoU; pfam01895 882884009544 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; cl11391 882884009545 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 882884009546 Sulfate transporter family; Region: Sulfate_transp; cl00967 882884009547 Permease family; Region: Xan_ur_permease; pfam00860 882884009548 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 882884009549 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 882884009550 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 882884009551 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884009552 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 882884009553 substrate binding pocket [chemical binding]; other site 882884009554 dimerization interface [polypeptide binding]; other site 882884009555 multidrug efflux system protein MdtL; Provisional; Region: PRK10473 882884009556 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 882884009557 putative substrate translocation pore; other site 882884009558 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 882884009559 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 882884009560 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 882884009561 G1 box; other site 882884009562 GTP/Mg2+ binding site [chemical binding]; other site 882884009563 Switch I region; other site 882884009564 G2 box; other site 882884009565 Switch II region; other site 882884009566 G3 box; other site 882884009567 G4 box; other site 882884009568 G5 box; other site 882884009569 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 882884009570 membrane protein insertase; Provisional; Region: PRK01318 882884009571 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 882884009572 Ribonuclease P; Region: Ribonuclease_P; cl00457 882884009573 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 882884009574 hypothetical protein; Validated; Region: PRK06672 882884009575 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 882884009576 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...; Region: AAA; cd00009 882884009577 Walker A motif; other site 882884009578 ATP binding site [chemical binding]; other site 882884009579 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884009580 Walker B motif; other site 882884009581 arginine finger; other site 882884009582 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 882884009583 DnaA box-binding interface [nucleotide binding]; other site 882884009584 DNA polymerase III subunit beta; Validated; Region: PRK05643 882884009585 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...; Region: beta_clamp; cd00140 882884009586 putative DNA binding surface [nucleotide binding]; other site 882884009587 dimer interface [polypeptide binding]; other site 882884009588 beta-clamp/clamp loader binding surface; other site 882884009589 beta-clamp/translesion DNA polymerase binding surface; other site 882884009590 recombination protein F; Reviewed; Region: recF; PRK00064 882884009591 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884009592 Walker A/P-loop; other site 882884009593 ATP binding site [chemical binding]; other site 882884009594 Q-loop/lid; other site 882884009595 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884009596 ABC transporter signature motif; other site 882884009597 Walker B; other site 882884009598 D-loop; other site 882884009599 H-loop/switch region; other site 882884009600 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 882884009601 Histidine kinase-like ATPases; This family includes several ATP-binding 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 882884009602 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 882884009603 anchoring element; other site 882884009604 dimer interface [polypeptide binding]; other site 882884009605 ATP binding site [chemical binding]; other site 882884009606 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...; Region: TOPRIM_TopoIIA_GyrB; cd03366 882884009607 active site 882884009608 putative metal-binding site [ion binding]; other site 882884009609 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 882884009610 sugar phosphate phosphatase; Provisional; Region: PRK10513 882884009611 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 882884009612 active site 882884009613 motif I; other site 882884009614 motif II; other site 882884009615 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 882884009616 hybrid sensory histidine kinase TorS; Provisional; Region: PRK11466 882884009617 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 trans-...; Region: HisKA; cd00082 882884009618 dimer interface [polypeptide binding]; other site 882884009619 phosphorylation site [posttranslational modification] 882884009620 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884009621 ATP binding site [chemical binding]; other site 882884009622 Mg2+ binding site [ion binding]; other site 882884009623 G-X-G motif; other site 882884009624 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884009625 active site 882884009626 phosphorylation site [posttranslational modification] 882884009627 intermolecular recognition site; other site 882884009628 dimerization interface [polypeptide binding]; other site 882884009629 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 882884009630 putative binding surface; other site 882884009631 active site 882884009632 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 882884009633 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 882884009634 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 882884009635 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884009636 active site 882884009637 phosphorylation site [posttranslational modification] 882884009638 intermolecular recognition site; other site 882884009639 dimerization interface [polypeptide binding]; other site 882884009640 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...; Region: trans_reg_C; cd00383 882884009641 DNA binding site [nucleotide binding] 882884009642 trimethylamine N-oxide reductase cytochrome c-type subunit; Provisional; Region: PRK15032 882884009643 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl09485 882884009644 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 882884009645 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 882884009646 molybdopterin cofactor binding site [chemical binding]; other site 882884009647 substrate binding site [chemical binding]; other site 882884009648 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 882884009649 molybdopterin cofactor binding site; other site 882884009650 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 882884009651 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 882884009652 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 882884009653 CcmA, the ATP-binding component of the bacterial CcmAB transporter. The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH); Region: ABC_CcmA_heme_exporter; cd03231 882884009654 Walker A/P-loop; other site 882884009655 ATP binding site [chemical binding]; other site 882884009656 Q-loop/lid; other site 882884009657 ABC transporter signature motif; other site 882884009658 Walker B; other site 882884009659 D-loop; other site 882884009660 H-loop/switch region; other site 882884009661 CcmB protein; Region: CcmB; cl01016 882884009662 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 882884009663 Heme exporter protein D (CcmD); Region: CcmD; cl11475 882884009664 CcmE; Region: CcmE; cl00994 882884009665 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 882884009666 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 882884009667 catalytic residues [active] 882884009668 central insert; other site 882884009669 Cytochrome C biogenesis protein; Region: CcmH; cl01179 882884009670 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 882884009671 Protein of unknown function (DUF3748); Region: DUF3748; pfam12566 882884009672 translocation protein TolB; Provisional; Region: tolB; PRK01029 882884009673 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 882884009674 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 882884009675 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein...; Region: ACD_IbpA-B_like; cd06470 882884009676 putative dimer interface [polypeptide binding]; other site 882884009677 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 882884009678 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein...; Region: ACD_IbpA-B_like; cd06470 882884009679 putative dimer interface [polypeptide binding]; other site 882884009680 VIP2; A family of actin-ADP-ribosylating toxin. A member of the Bacillus-prodiced vegetative insecticidal proteins (VIPs) possesses high specificity against the major insect pest, corn rootworms, and belongs to a classs of binary toxins and regulators...; Region: VIP2; cl00173 882884009681 putative transporter; Validated; Region: PRK03818 882884009682 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 882884009683 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 882884009684 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 882884009685 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 882884009686 Cupin domain; Region: Cupin_2; cl09118 882884009687 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882884009688 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 882884009689 Sodium:solute symporter family; Region: SSF; cl00456 882884009690 putative transporter; Provisional; Region: PRK10484 882884009691 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 882884009692 Sulfatase; Region: Sulfatase; cl10460 882884009693 Domain of unknown function DUF; Region: DUF202; cl09954 882884009694 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 882884009695 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 882884009696 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 882884009697 catalytic residue [active] 882884009698 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 882884009699 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 882884009700 putative substrate translocation pore; other site 882884009701 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 882884009702 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 882884009703 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 882884009704 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 882884009705 PYR/PP interface [polypeptide binding]; other site 882884009706 dimer interface [polypeptide binding]; other site 882884009707 TPP binding site [chemical binding]; other site 882884009708 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 882884009709 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 882884009710 TPP-binding site [chemical binding]; other site 882884009711 dimer interface [polypeptide binding]; other site 882884009712 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 882884009713 putative valine binding site [chemical binding]; other site 882884009714 dimer interface [polypeptide binding]; other site 882884009715 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 882884009716 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884009717 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 882884009718 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of...; Region: ribokinase; cd01174 882884009719 substrate binding site [chemical binding]; other site 882884009720 dimer interface [polypeptide binding]; other site 882884009721 ATP binding site [chemical binding]; other site 882884009722 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 882884009723 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 882884009724 deoxyribose mutarotase_like; Region: deoxyribose_mutarotase; cd09269 882884009725 active site 882884009726 catalytic residues [active] 882884009727 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 882884009728 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884009729 active site 882884009730 phosphorylation site [posttranslational modification] 882884009731 intermolecular recognition site; other site 882884009732 dimerization interface [polypeptide binding]; other site 882884009733 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...; Region: LuxR_C_like; cd06170 882884009734 DNA binding residues [nucleotide binding] 882884009735 dimerization interface [polypeptide binding]; other site 882884009736 sensory histidine kinase UhpB; Provisional; Region: PRK11644 882884009737 MASE1; Region: MASE1; pfam05231 882884009738 Histidine kinase; Region: HisKA_3; pfam07730 882884009739 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884009740 ATP binding site [chemical binding]; other site 882884009741 Mg2+ binding site [ion binding]; other site 882884009742 G-X-G motif; other site 882884009743 regulatory protein UhpC; Provisional; Region: PRK11663 882884009744 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 882884009745 putative substrate translocation pore; other site 882884009746 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 882884009747 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 882884009748 putative substrate translocation pore; other site 882884009749 Protein of unknown function (DUF1198); Region: DUF1198; pfam06711 882884009750 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 882884009751 EamA-like transporter family; Region: EamA; cl01037 882884009752 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 882884009753 MgtC family; Region: MgtC; cl12207 882884009754 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 882884009755 magnesium-transporting ATPase; Provisional; Region: PRK15122 882884009756 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 882884009757 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 882884009758 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; cl11391 882884009759 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 882884009760 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 882884009761 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; cl07038 882884009762 D5 N terminal like; Region: D5_N; pfam08706 882884009763 C-terminal domain; Region: primase_Cterm; TIGR01613 882884009764 Ash protein family; Region: Phage_ASH; pfam10554 882884009765 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 882884009766 Ogr/Delta-like zinc finger; Region: Ogr_Delta; cl04623 882884009767 Phage polarity suppression protein (Psu); Region: Psu; pfam07455 882884009768 RT_Bac_retron_II: 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_II; cd03487 882884009769 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 882884009770 putative active site [active] 882884009771 putative NTP binding site [chemical binding]; other site 882884009772 putative nucleic acid binding site [nucleotide binding]; other site 882884009773 integrase; Provisional; Region: PRK09692 882884009774 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 882884009775 active site 882884009776 Int/Topo IB signature motif; other site 882884009777 putative transporter; Provisional; Region: PRK11462 882884009778 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 882884009779 putative alpha-glucosidase; Provisional; Region: PRK10658 882884009780 YicI alpha-xylosidase is a glycosyl hydrolase family 31 (GH31) enzyme that catalyzes the release of an alpha-xylosyl residue from the non-reducing end of alpha-xyloside substrates such as alpha-xylosyl fluoride and isoprimeverose. YicI forms a...; Region: GH31_xylosidase_YicI; cd06593 882884009781 active site 882884009782 homotrimer interface [polypeptide binding]; other site 882884009783 catalytic site [active] 882884009784 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 882884009785 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 882884009786 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 882884009787 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 882884009788 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 882884009789 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 882884009790 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 882884009791 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 882884009792 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 882884009793 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 882884009794 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 882884009795 AsmA family; Region: AsmA; pfam05170 882884009796 Sulfate transporter family; Region: Sulfate_transp; cl00967 882884009797 Permease family; Region: Xan_ur_permease; pfam00860 882884009798 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 882884009799 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 882884009800 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 four-...; Region: RecG_wedge_OBF; cd04488 882884009801 generic binding surface II; other site 882884009802 ssDNA binding site; other site 882884009803 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 882884009804 ATP binding site [chemical binding]; other site 882884009805 putative Mg++ binding site [ion binding]; other site 882884009806 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 882884009807 nucleotide binding region [chemical binding]; other site 882884009808 ATP-binding site [chemical binding]; other site 882884009809 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 882884009810 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 882884009811 C-terminal; Region: SpoU_methylas_C; pfam12105 882884009812 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 882884009813 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 882884009814 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 882884009815 synthetase active site [active] 882884009816 NTP binding site [chemical binding]; other site 882884009817 metal binding site [ion binding]; metal-binding site 882884009818 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...; Region: TGS_RelA_SpoT; cd01668 882884009819 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 882884009820 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 882884009821 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...; Region: GMPK; cd00071 882884009822 catalytic site [active] 882884009823 G-X2-G-X-G-K; other site 882884009824 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 882884009825 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; cl03295 882884009826 nucleotide binding pocket [chemical binding]; other site 882884009827 K-X-D-G motif; other site 882884009828 catalytic site [active] 882884009829 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 882884009830 Predicted membrane protein [Function unknown]; Region: COG2860 882884009831 UPF0126 domain; Region: UPF0126; pfam03458 882884009832 UPF0126 domain; Region: UPF0126; pfam03458 882884009833 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 882884009834 Transcriptional regulator [Transcription]; Region: LysR; COG0583 882884009835 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884009836 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884009837 hypothetical protein; Provisional; Region: PRK11820 882884009838 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 882884009839 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 882884009840 ribonuclease PH; Reviewed; Region: rph; PRK00173 882884009841 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 882884009842 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 882884009843 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 882884009844 division inhibitor protein; Provisional; Region: slmA; PRK09480 882884009845 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 882884009846 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 882884009847 trimer interface [polypeptide binding]; other site 882884009848 active site 882884009849 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 882884009850 Flavoprotein; Region: Flavoprotein; cl08021 882884009851 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 882884009852 hypothetical protein; Reviewed; Region: PRK00024 882884009853 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 882884009854 MPN+ (JAMM) motif; other site 882884009855 Zinc-binding site [ion binding]; other site 882884009856 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 882884009857 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 882884009858 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 882884009859 DNA binding site [nucleotide binding] 882884009860 catalytic residue [active] 882884009861 H2TH interface [polypeptide binding]; other site 882884009862 putative catalytic residues [active] 882884009863 turnover-facilitating residue; other site 882884009864 intercalation triad [nucleotide binding]; other site 882884009865 8OG recognition residue [nucleotide binding]; other site 882884009866 putative reading head residues; other site 882884009867 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 882884009868 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 882884009869 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 882884009870 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 882884009871 active site 882884009872 (T/H)XGH motif; other site 882884009873 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 882884009874 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 882884009875 Glycosyl transferases group 1; Region: Glycos_transf_1; cl12012 882884009876 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10422 882884009877 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 882884009878 putative active site [active] 882884009879 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 882884009880 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 882884009881 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 882884009882 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 882884009883 UDP-D-galactose:(glucosyl)lipopolysaccharide-1, 6-D-galactosyltransferase; Provisional; Region: PRK09922 882884009884 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 882884009885 putative ADP-binding pocket [chemical binding]; other site 882884009886 lipopolysaccharide 1,3-galactosyltransferase; Provisional; Region: PRK15171 882884009887 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 882884009888 Ligand binding site [chemical binding]; other site 882884009889 metal binding site [ion binding]; metal-binding site 882884009890 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8N; pfam08437 882884009891 lipopolysaccharide 1,3-galactosyltransferase; Provisional; Region: PRK15171 882884009892 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 882884009893 Ligand binding site [chemical binding]; other site 882884009894 metal binding site [ion binding]; metal-binding site 882884009895 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8N; pfam08437 882884009896 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 882884009897 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK09822 882884009898 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 882884009899 O-Antigen ligase; Region: Wzy_C; cl04850 882884009900 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 882884009901 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 882884009902 putative active site [active] 882884009903 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 882884009904 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 882884009905 putative active site [active] 882884009906 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 882884009907 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 882884009908 NADP binding site [chemical binding]; other site 882884009909 homopentamer interface [polypeptide binding]; other site 882884009910 substrate binding site [chemical binding]; other site 882884009911 active site 882884009912 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 882884009913 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS), 8-amino-7-...; Region: KBL_like; cd06454 882884009914 substrate-cofactor binding pocket; other site 882884009915 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884009916 catalytic residue [active] 882884009917 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 882884009918 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 882884009919 NAD(P) binding site [chemical binding]; other site 882884009920 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 882884009921 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 882884009922 active site 882884009923 Divergent polysaccharide deacetylase; Region: Polysacc_deac_2; cl04721 882884009924 AmiB activator; Provisional; Region: PRK11637 882884009925 HemX; Region: HemX; cl14667 882884009926 Peptidase family M23; Region: Peptidase_M23; pfam01551 882884009927 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 882884009928 Sulfatase; Region: Sulfatase; cl10460 882884009929 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 882884009930 active site residue [active] 882884009931 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 882884009932 GSH binding site [chemical binding]; other site 882884009933 catalytic residues [active] 882884009934 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 882884009935 SecA binding site; other site 882884009936 Preprotein binding site; other site 882884009937 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 882884009938 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884009939 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 882884009940 serine acetyltransferase; Provisional; Region: cysE; PRK11132 882884009941 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 882884009942 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 L-...; Region: LbH_SAT; cd03354 882884009943 trimer interface [polypeptide binding]; other site 882884009944 active site 882884009945 substrate binding site [chemical binding]; other site 882884009946 CoA binding site [chemical binding]; other site 882884009947 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 882884009948 D-galactonate transporter; Region: 2A0114; TIGR00893 882884009949 putative substrate translocation pore; other site 882884009950 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues...; Region: MR_like; cd03316 882884009951 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 882884009952 active site pocket [active] 882884009953 Transcriptional regulators [Transcription]; Region: PurR; COG1609 882884009954 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 882884009955 DNA binding site [nucleotide binding] 882884009956 domain linker motif; other site 882884009957 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 882884009958 putative dimerization interface [polypeptide binding]; other site 882884009959 putative ligand binding site [chemical binding]; other site 882884009960 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 882884009961 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 882884009962 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 882884009963 phosphate binding site [ion binding]; other site 882884009964 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 882884009965 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882884009966 DNA-binding site [nucleotide binding]; DNA binding site 882884009967 FCD domain; Region: FCD; cl11656 882884009968 L-lactate permease; Region: Lactate_perm; cl00701 882884009969 glycolate transporter; Provisional; Region: PRK09695 882884009970 Protein of unknown function (DUF2810); Region: DUF2810; cl08159 882884009971 Mannitol repressor; Region: MtlR; cl11450 882884009972 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 882884009973 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 882884009974 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 882884009975 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 882884009976 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 882884009977 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_mannitol; cd05567 882884009978 active site 882884009979 P-loop; other site 882884009980 phosphorylation site [posttranslational modification] 882884009981 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 882884009982 active site 882884009983 phosphorylation site [posttranslational modification] 882884009984 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 882884009985 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 882884009986 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 882884009987 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 882884009988 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIB_glc; cd00212 882884009989 active site turn [active] 882884009990 phosphorylation site [posttranslational modification] 882884009991 Sulfatase; Region: Sulfatase; cl10460 882884009992 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 882884009993 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 882884009994 active site 882884009995 catalytic residues [active] 882884009996 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 882884009997 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose...; Region: SIS_RpiR; cd05013 882884009998 putative active site [active] 882884009999 Domain of unknown function DUF; Region: DUF202; cl09954 882884010000 putative glutathione S-transferase; Provisional; Region: PRK10357 882884010001 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 882884010002 putative C-terminal domain interface [polypeptide binding]; other site 882884010003 putative GSH binding site (G-site) [chemical binding]; other site 882884010004 putative dimer interface [polypeptide binding]; other site 882884010005 GST_C family, unknown subfamily 6; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_C_6; cd03205 882884010006 putative N-terminal domain interface [polypeptide binding]; other site 882884010007 putative dimer interface [polypeptide binding]; other site 882884010008 putative substrate binding pocket (H-site) [chemical binding]; other site 882884010009 selenocysteine synthase; Provisional; Region: PRK04311 882884010010 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 882884010011 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 882884010012 SelB subfamily. SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of...; Region: SelB; cd04171 882884010013 G1 box; other site 882884010014 putative GEF interaction site [polypeptide binding]; other site 882884010015 GTP/Mg2+ binding site [chemical binding]; other site 882884010016 Switch I region; other site 882884010017 G2 box; other site 882884010018 G3 box; other site 882884010019 Switch II region; other site 882884010020 G4 box; other site 882884010021 G5 box; other site 882884010022 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires...; Region: selB_II; cd03696 882884010023 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 882884010024 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 882884010025 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 882884010026 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 882884010027 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 882884010028 dimer interface [polypeptide binding]; other site 882884010029 active site 882884010030 metal binding site [ion binding]; metal-binding site 882884010031 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 882884010032 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 882884010033 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 882884010034 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 882884010035 NAD(P) binding site [chemical binding]; other site 882884010036 catalytic residues [active] 882884010037 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 882884010038 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 882884010039 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884010040 homodimer interface [polypeptide binding]; other site 882884010041 catalytic residue [active] 882884010042 alpha-amylase; Reviewed; Region: malS; PRK09505 882884010043 Uncharacterized FlgJ-related protein [General function prediction only]; Region: Bax; COG2992 882884010044 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 882884010045 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 882884010046 putative dimerization interface [polypeptide binding]; other site 882884010047 putative ligand binding site [chemical binding]; other site 882884010048 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882884010049 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 882884010050 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882884010051 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 882884010052 xylose isomerase; Region: PLN02923 882884010053 xylulokinase; Provisional; Region: PRK15027 882884010054 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 882884010055 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 882884010056 Predicted membrane protein [Function unknown]; Region: COG4682 882884010057 yiaA/B two helix domain; Region: YiaAB; cl01759 882884010058 Predicted O-acyltransferase [General function prediction only]; Region: COG3274; cl00792 882884010059 Acyltransferase family; Region: Acyl_transf_3; pfam01757 882884010060 glycyl-tRNA synthetase, tetrameric type, alpha subunit; Region: glyQ; TIGR00388 882884010061 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 882884010062 dimer interface [polypeptide binding]; other site 882884010063 motif 1; other site 882884010064 active site 882884010065 motif 2; other site 882884010066 motif 3; other site 882884010067 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 882884010068 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 882884010069 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 882884010070 Integrase core domain; Region: rve; cl01316 882884010071 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 882884010072 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 882884010073 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 882884010074 DNA-binding site [nucleotide binding]; DNA binding site 882884010075 RNA-binding motif; other site 882884010076 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 882884010077 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 882884010078 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884010079 putative outer membrane lipoprotein; Provisional; Region: PRK10510 882884010080 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 882884010081 ligand binding site [chemical binding]; other site 882884010082 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 882884010083 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 882884010084 molybdopterin cofactor binding site [chemical binding]; other site 882884010085 substrate binding site [chemical binding]; other site 882884010086 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 882884010087 molybdopterin cofactor binding site; other site 882884010088 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 882884010089 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 882884010090 Autotransporter beta-domain; Region: Autotransporter; cl02365 882884010091 phosphoethanolamine transferase; Provisional; Region: PRK11560 882884010092 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 882884010093 Sulfatase; Region: Sulfatase; cl10460 882884010094 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 882884010095 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 882884010096 peptide binding site [polypeptide binding]; other site 882884010097 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 882884010098 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...; Region: TM_PBP2; cd06261 882884010099 dimer interface [polypeptide binding]; other site 882884010100 conserved gate region; other site 882884010101 putative PBP binding loops; other site 882884010102 ABC-ATPase subunit interface; other site 882884010103 dipeptide transporter; Provisional; Region: PRK10913 882884010104 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 882884010105 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...; Region: TM_PBP2; cd06261 882884010106 dimer interface [polypeptide binding]; other site 882884010107 conserved gate region; other site 882884010108 putative PBP binding loops; other site 882884010109 ABC-ATPase subunit interface; other site 882884010110 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 882884010111 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 882884010112 Walker A/P-loop; other site 882884010113 ATP binding site [chemical binding]; other site 882884010114 Q-loop/lid; other site 882884010115 ABC transporter signature motif; other site 882884010116 Walker B; other site 882884010117 D-loop; other site 882884010118 H-loop/switch region; other site 882884010119 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 882884010120 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 882884010121 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 882884010122 Walker A/P-loop; other site 882884010123 ATP binding site [chemical binding]; other site 882884010124 Q-loop/lid; other site 882884010125 ABC transporter signature motif; other site 882884010126 Walker B; other site 882884010127 D-loop; other site 882884010128 H-loop/switch region; other site 882884010129 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 882884010130 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 882884010131 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 882884010132 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 882884010133 Protein of unknown function (DUF3260); Region: DUF3260; cl11881 882884010134 Protein of unknown function (DUF2636); Region: DUF2636; cl11897 882884010135 cellulose biosynthesis protein BcsE; Provisional; Region: PRK15045 882884010136 Protein of unknown function (DUF2819); Region: DUF2819; cl11882 882884010137 Protein of unknown function (DUF2629); Region: DUF2629; pfam10945 882884010138 cell division protein; Provisional; Region: PRK10037 882884010139 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 882884010140 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 882884010141 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 882884010142 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 882884010143 DXD motif; other site 882884010144 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 882884010145 PilZ domain; Region: PilZ; cl01260 882884010146 cellulose synthase regulator protein; Provisional; Region: PRK11114 882884010147 Bacterial cellulose synthase subunit; Region: BcsB; pfam03170 882884010148 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 882884010149 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 882884010150 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 882884010151 TPR motif; other site 882884010152 binding surface 882884010153 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 882884010154 binding surface 882884010155 TPR motif; other site 882884010156 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 882884010157 putative diguanylate cyclase; Provisional; Region: PRK13561 882884010158 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 connected by an extended linker. The...; Region: HAMP; cl01054 882884010159 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882884010160 I-site; other site 882884010161 active site 882884010162 metal binding site [ion binding]; metal-binding site 882884010163 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 882884010164 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 882884010165 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 882884010166 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 882884010167 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 882884010168 substrate binding site [chemical binding]; other site 882884010169 ATP binding site [chemical binding]; other site 882884010170 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 882884010171 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 882884010172 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 882884010173 metabolite-proton symporter; Region: 2A0106; TIGR00883 882884010174 putative substrate translocation pore; other site 882884010175 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 882884010176 Transcriptional regulator [Transcription]; Region: LysR; COG0583 882884010177 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 882884010178 putative effector binding pocket; other site 882884010179 putative dimerization interface [polypeptide binding]; other site 882884010180 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 882884010181 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...; Region: LuxR_C_like; cd06170 882884010182 DNA binding residues [nucleotide binding] 882884010183 dimerization interface [polypeptide binding]; other site 882884010184 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases...; Region: lysozyme_like; cl00222 882884010185 catalytic residue [active] 882884010186 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 882884010187 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 882884010188 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 882884010189 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882884010190 DNA-binding site [nucleotide binding]; DNA binding site 882884010191 UTRA domain; Region: UTRA; cl06649 882884010192 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 882884010193 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS_1; cd05710 882884010194 putative active site [active] 882884010195 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 882884010196 dimer interface [polypeptide binding]; other site 882884010197 active site 882884010198 Fructoselysine kinase-like. Fructoselysine is a fructoseamine formed by glycation, a non-enzymatic reaction of glucose with a primary amine followed by an Amadori rearrangement, resulting in a protein that is modified at the amino terminus and at the...; Region: Fructoselysine_kinase_like; cd01940 882884010199 substrate binding site [chemical binding]; other site 882884010200 ATP binding site [chemical binding]; other site 882884010201 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 882884010202 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cl00216 882884010203 tetramer interface [polypeptide binding]; other site 882884010204 active site/substrate binding site [active] 882884010205 glutathione reductase; Validated; Region: PRK06116 882884010206 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 882884010207 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 882884010208 Protein of unknown function (DUF519); Region: DUF519; cl04492 882884010209 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role...; Region: PAP2_acid_phosphatase; cd03397 882884010210 active site 882884010211 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 882884010212 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 882884010213 active site 882884010214 Zn binding site [ion binding]; other site 882884010215 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 882884010216 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 882884010217 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 882884010218 Predicted transcriptional regulator [Transcription]; Region: COG1959 882884010219 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884010220 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 882884010221 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 882884010222 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 882884010223 Ligand Binding Site [chemical binding]; other site 882884010224 Universal stress protein B (UspB); Region: UspB; cl11669 882884010225 Phosphate transporter family; Region: PHO4; cl00396 882884010226 Phosphate transporter family; Region: PHO4; cl00396 882884010227 Predicted flavoproteins [General function prediction only]; Region: COG2081 882884010228 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 882884010229 nickel responsive regulator; Provisional; Region: PRK02967 882884010230 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 882884010231 holo-(acyl carrier protein) synthase 2; Provisional; Region: PRK10351 882884010232 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 882884010233 Domain of unknown function DUF20; Region: UPF0118; cl00465 882884010234 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 882884010235 hypothetical protein; Provisional; Region: PRK11615 882884010236 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 882884010237 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 882884010238 CPxP motif; other site 882884010239 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 882884010240 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 882884010241 metal-binding site [ion binding] 882884010242 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 882884010243 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; cl11391 882884010244 YhhN-like protein; Region: YhhN; cl01505 882884010245 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 882884010246 Protein of unknown function (DUF1145); Region: DUF1145; cl11481 882884010247 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 882884010248 S-adenosylmethionine binding site [chemical binding]; other site 882884010249 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 882884010250 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 882884010251 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 882884010252 P loop; other site 882884010253 GTP binding site [chemical binding]; other site 882884010254 cell division protein FtsE; Provisional; Region: PRK10908 882884010255 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884010256 Walker A/P-loop; other site 882884010257 ATP binding site [chemical binding]; other site 882884010258 Q-loop/lid; other site 882884010259 ABC transporter signature motif; other site 882884010260 Walker B; other site 882884010261 D-loop; other site 882884010262 H-loop/switch region; other site 882884010263 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 882884010264 FtsX-like permease family; Region: FtsX; pfam02687 882884010265 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 882884010266 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 882884010267 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...; Region: Sigma70_r4; cd06171 882884010268 DNA binding residues [nucleotide binding] 882884010269 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 882884010270 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 882884010271 dimerization interface [polypeptide binding]; other site 882884010272 ligand binding site [chemical binding]; other site 882884010273 Acetyltransferase, GNAT family; Region: DUF3749; pfam12568 882884010274 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 882884010275 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 882884010276 dimerization interface [polypeptide binding]; other site 882884010277 ligand binding site [chemical binding]; other site 882884010278 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 882884010279 TM-ABC transporter signature motif; other site 882884010280 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 882884010281 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 882884010282 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 882884010283 TM-ABC transporter signature motif; other site 882884010284 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 882884010285 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E...; Region: ABC_Mj1267_LivG_branched; cd03219 882884010286 Walker A/P-loop; other site 882884010287 ATP binding site [chemical binding]; other site 882884010288 Q-loop/lid; other site 882884010289 ABC transporter signature motif; other site 882884010290 Walker B; other site 882884010291 D-loop; other site 882884010292 H-loop/switch region; other site 882884010293 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 882884010294 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 882884010295 Walker A/P-loop; other site 882884010296 ATP binding site [chemical binding]; other site 882884010297 Q-loop/lid; other site 882884010298 ABC transporter signature motif; other site 882884010299 Walker B; other site 882884010300 D-loop; other site 882884010301 H-loop/switch region; other site 882884010302 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884010303 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 882884010304 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 882884010305 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...; Region: TM_PBP2; cd06261 882884010306 putative PBP binding loops; other site 882884010307 dimer interface [polypeptide binding]; other site 882884010308 ABC-ATPase subunit interface; other site 882884010309 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 882884010310 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...; Region: TM_PBP2; cd06261 882884010311 dimer interface [polypeptide binding]; other site 882884010312 conserved gate region; other site 882884010313 ABC-ATPase subunit interface; other site 882884010314 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 882884010315 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 882884010316 Walker A/P-loop; other site 882884010317 ATP binding site [chemical binding]; other site 882884010318 Q-loop/lid; other site 882884010319 ABC transporter signature motif; other site 882884010320 Walker B; other site 882884010321 D-loop; other site 882884010322 H-loop/switch region; other site 882884010323 TOBE domain; Region: TOBE_2; cl01440 882884010324 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 882884010325 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 882884010326 putative active site [active] 882884010327 catalytic site [active] 882884010328 putative metal binding site [ion binding]; other site 882884010329 Protein of unknown function (DUF2756); Region: DUF2756; cl08110 882884010330 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 882884010331 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 882884010332 putative oxidoreductase; Provisional; Region: PRK10206 882884010333 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884010334 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 882884010335 Cupin domain; Region: Cupin_2; cl09118 882884010336 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 882884010337 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 882884010338 DNA binding site [nucleotide binding] 882884010339 domain linker motif; other site 882884010340 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 882884010341 putative ligand binding site [chemical binding]; other site 882884010342 putative dimerization interface [polypeptide binding]; other site 882884010343 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 882884010344 ATP-binding site [chemical binding]; other site 882884010345 Gluconate-6-phosphate binding site [chemical binding]; other site 882884010346 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 882884010347 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884010348 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 882884010349 glycogen branching enzyme; Provisional; Region: PRK05402 882884010350 Glycogen branching enzyme N-terminus domain. Glycogen branching enzyme (AKA 1,4 alpha glucan branching enzyme) catalyzes the formation of alpha-1,6 branch points in either glycogen or starch by cleavage of the alpha-1,4 glucosidic linkage yielding a...; Region: Glycogen_branching_enzyme_N_term; cd02855 882884010351 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 882884010352 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 882884010353 glycogen debranching enzyme; Provisional; Region: PRK03705 882884010354 Glycogen_debranching_enzyme N-terminal domain. Glycogen debranching enzymes have both 4-alpha-glucanotransferase and amylo-1,6-glucosidase activities. As a transferase it transfers a segment of a 1,4-alpha-D-glucan to a new 4-position in an acceptor...; Region: Glycogen_debranching_enzyme_N_term; cd02856 882884010355 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 882884010356 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 882884010357 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 882884010358 ligand binding site [chemical binding]; other site 882884010359 oligomer interface [polypeptide binding]; other site 882884010360 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and rate-...; Region: LbH_G1P_AT_C; cd04651 882884010361 dimer interface [polypeptide binding]; other site 882884010362 N-terminal domain interface [polypeptide binding]; other site 882884010363 sulfate 1 binding site; other site 882884010364 glycogen synthase; Provisional; Region: glgA; PRK00654 882884010365 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 882884010366 ADP-binding pocket [chemical binding]; other site 882884010367 homodimer interface [polypeptide binding]; other site 882884010368 glycogen phosphorylase; Provisional; Region: PRK14986 882884010369 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 882884010370 homodimer interface [polypeptide binding]; other site 882884010371 active site pocket [active] 882884010372 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 882884010373 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 882884010374 active site residue [active] 882884010375 intramembrane serine protease GlpG; Provisional; Region: PRK10907 882884010376 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 882884010377 Rhomboid family; Region: Rhomboid; cl11446 882884010378 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 882884010379 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884010380 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 882884010381 transcriptional regulator MalT; Provisional; Region: PRK04841 882884010382 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...; Region: LuxR_C_like; cd06170 882884010383 DNA binding residues [nucleotide binding] 882884010384 dimerization interface [polypeptide binding]; other site 882884010385 maltodextrin phosphorylase; Provisional; Region: PRK14985 882884010386 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 882884010387 homodimer interface [polypeptide binding]; other site 882884010388 active site pocket [active] 882884010389 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 882884010390 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 882884010391 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 882884010392 gluconate transporter; Region: gntP; TIGR00791 882884010393 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 882884010394 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 882884010395 NifU-like domain; Region: NifU; cl00484 882884010396 DNA utilization protein GntX; Provisional; Region: PRK11595 882884010397 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 882884010398 carboxylesterase BioH; Provisional; Region: PRK10349 882884010399 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 882884010400 hypothetical protein; Provisional; Region: PRK09956 882884010401 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 882884010402 FeoC like transcriptional regulator; Region: FeoC; cl07573 882884010403 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 882884010404 Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this...; Region: FeoB; cd01879 882884010405 G1 box; other site 882884010406 GTP/Mg2+ binding site [chemical binding]; other site 882884010407 Switch I region; other site 882884010408 G2 box; other site 882884010409 G3 box; other site 882884010410 Switch II region; other site 882884010411 G4 box; other site 882884010412 G5 box; other site 882884010413 Nucleoside recognition; Region: Gate; cl00486 882884010414 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 882884010415 Nucleoside recognition; Region: Gate; cl00486 882884010416 FeoA domain; Region: FeoA; cl00838 882884010417 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 882884010418 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 882884010419 Uncharacterised protein family (UPF0081); Region: UPF0081; cl00525 882884010420 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...; Region: S1_Tex; cd05685 882884010421 RNA binding site [nucleotide binding]; other site 882884010422 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 882884010423 domain; Region: GreA_GreB_N; pfam03449 882884010424 C-term; Region: GreA_GreB; pfam01272 882884010425 osmolarity response regulator; Provisional; Region: ompR; PRK09468 882884010426 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884010427 active site 882884010428 phosphorylation site [posttranslational modification] 882884010429 intermolecular recognition site; other site 882884010430 dimerization interface [polypeptide binding]; other site 882884010431 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...; Region: trans_reg_C; cd00383 882884010432 DNA binding site [nucleotide binding] 882884010433 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 882884010434 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 connected by an extended linker. The...; Region: HAMP; cl01054 882884010435 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 trans-...; Region: HisKA; cd00082 882884010436 dimer interface [polypeptide binding]; other site 882884010437 phosphorylation site [posttranslational modification] 882884010438 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884010439 ATP binding site [chemical binding]; other site 882884010440 G-X-G motif; other site 882884010441 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 882884010442 active site 882884010443 substrate-binding site [chemical binding]; other site 882884010444 metal-binding site [ion binding] 882884010445 ATP binding site [chemical binding]; other site 882884010446 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 882884010447 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 882884010448 dimerization interface [polypeptide binding]; other site 882884010449 domain crossover interface; other site 882884010450 redox-dependent activation switch; other site 882884010451 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 882884010452 RNA binding surface [nucleotide binding]; other site 882884010453 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; cl11391 882884010454 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 882884010455 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 882884010456 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 882884010457 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as...; Region: ADPRase_NUDT5; cd03424 882884010458 dimer interface [polypeptide binding]; other site 882884010459 ADP-ribose binding site [chemical binding]; other site 882884010460 active site 882884010461 nudix motif; other site 882884010462 metal binding site [ion binding]; metal-binding site 882884010463 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 882884010464 Transglycosylase; Region: Transgly; cl07896 882884010465 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 882884010466 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 882884010467 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 882884010468 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 882884010469 Protein of unknown function (DUF2531); Region: DUF2531; pfam10748 882884010470 outer membrane porin HofQ; Provisional; Region: hofQ; PRK10560 882884010471 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 882884010472 shikimate kinase; Reviewed; Region: aroK; PRK00131 882884010473 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...; Region: SK; cd00464 882884010474 ADP binding site [chemical binding]; other site 882884010475 magnesium binding site [ion binding]; other site 882884010476 putative shikimate binding site; other site 882884010477 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 882884010478 active site 882884010479 dimer interface [polypeptide binding]; other site 882884010480 metal binding site [ion binding]; metal-binding site 882884010481 hypothetical protein; Reviewed; Region: PRK11901 882884010482 cell division protein DamX; Validated; Region: PRK10905 882884010483 Sporulation related domain; Region: SPOR; cl10051 882884010484 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 882884010485 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...; Region: RPE; cd00429 882884010486 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 882884010487 substrate binding site [chemical binding]; other site 882884010488 hexamer interface [polypeptide binding]; other site 882884010489 metal binding site [ion binding]; metal-binding site 882884010490 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 882884010491 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 882884010492 motif II; other site 882884010493 tryptophanyl-tRNA synthetase; Region: trpS; TIGR00233 882884010494 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 882884010495 active site 882884010496 HIGH motif; other site 882884010497 dimer interface [polypeptide binding]; other site 882884010498 KMSKS motif; other site 882884010499 siroheme synthase; Provisional; Region: cysG; PRK10637 882884010500 precorrin-2 dehydrogenase; Validated; Region: PRK06719 882884010501 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 882884010502 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 882884010503 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 882884010504 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain...; Region: Rieske_NirD; cd03529 882884010505 nitrite reductase subunit NirD; Provisional; Region: PRK14989 882884010506 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 882884010507 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 882884010508 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 882884010509 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 882884010510 putative transporter; Provisional; Region: PRK03699 882884010511 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 882884010512 putative substrate translocation pore; other site 882884010513 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 882884010514 substrate binding site [chemical binding]; other site 882884010515 Protein of unknown function (DUF2559); Region: DUF2559; cl08097 882884010516 Fic/DOC family; Region: Fic; cl00960 882884010517 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 882884010518 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 882884010519 glutamine binding [chemical binding]; other site 882884010520 catalytic triad [active] 882884010521 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 882884010522 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 882884010523 inhibitor-cofactor binding pocket; inhibition site 882884010524 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884010525 catalytic residue [active] 882884010526 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 882884010527 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 882884010528 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 882884010529 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 882884010530 ligand binding site [chemical binding]; other site 882884010531 flexible hinge region; other site 882884010532 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 882884010533 putative switch regulator; other site 882884010534 non-specific DNA interactions [nucleotide binding]; other site 882884010535 DNA binding site [nucleotide binding] 882884010536 sequence specific DNA binding site [nucleotide binding]; other site 882884010537 putative cAMP binding site [chemical binding]; other site 882884010538 OsmC-like protein; Region: OsmC; cl00767 882884010539 Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. PRK catalyzes the phosphorylation of D-ribulose 5-phosphate...; Region: PRK_like; cd02029 882884010540 Active site [active] 882884010541 Uncharacterised protein family (UPF0270); Region: UPF0270; cl01180 882884010542 putative hydrolase; Provisional; Region: PRK10985 882884010543 Putative mono-oxygenase ydhR; Region: ydhR; cl07420 882884010544 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 882884010545 Coenzyme A transferase; Region: CoA_trans; cl00773 882884010546 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 882884010547 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 882884010548 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 882884010549 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 882884010550 Membrane transport protein; Region: Mem_trans; cl09117 882884010551 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; cl07913 882884010552 Acyl transferase domain; Region: Acyl_transf_1; cl08282 882884010553 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 882884010554 Transcriptional regulator [Transcription]; Region: LysR; COG0583 882884010555 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884010556 The C-terminal substrate-binding domian of LysR-type transcriptional regulator MdcR, which involved in the malonate catabolism contains the type 2 periplasmic binding fold; Region: PBP2_MdcR; cd08416 882884010557 putative dimerization interface [polypeptide binding]; other site 882884010558 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 882884010559 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884010560 Walker A/P-loop; other site 882884010561 ATP binding site [chemical binding]; other site 882884010562 Q-loop/lid; other site 882884010563 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 882884010564 ABC transporter signature motif; other site 882884010565 Walker B; other site 882884010566 D-loop; other site 882884010567 ABC transporter; Region: ABC_tran_2; pfam12848 882884010568 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 882884010569 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 882884010570 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 882884010571 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 882884010572 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884010573 Probable metal-binding protein (DUF2387); Region: DUF2387; cl01410 882884010574 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 882884010575 SlyX; Region: SlyX; cl01090 882884010576 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 882884010577 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 882884010578 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 882884010579 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 882884010580 YheO-like PAS domain; Region: PAS_6; pfam08348 882884010581 DsrE/DsrF-like family; Region: DrsE; cl00672 882884010582 DsrE/DsrF-like family; Region: DrsE; cl00672 882884010583 DsrH like protein; Region: DsrH; cl00953 882884010584 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 882884010585 S17 interaction site [polypeptide binding]; other site 882884010586 S8 interaction site; other site 882884010587 16S rRNA interaction site [nucleotide binding]; other site 882884010588 streptomycin interaction site [chemical binding]; other site 882884010589 23S rRNA interaction site [nucleotide binding]; other site 882884010590 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 882884010591 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 882884010592 elongation factor G; Reviewed; Region: PRK00007 882884010593 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 882884010594 G1 box; other site 882884010595 putative GEF interaction site [polypeptide binding]; other site 882884010596 GTP/Mg2+ binding site [chemical binding]; other site 882884010597 Switch I region; other site 882884010598 G2 box; other site 882884010599 G3 box; other site 882884010600 Switch II region; other site 882884010601 G4 box; other site 882884010602 G5 box; other site 882884010603 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...; Region: EFG_mtEFG_II; cd04088 882884010604 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...; Region: EFG_mtEFG1_IV; cd01434 882884010605 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...; Region: EFG_mtEFG_C; cd03713 882884010606 elongation factor Tu; Reviewed; Region: PRK00049 882884010607 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 882884010608 G1 box; other site 882884010609 GEF interaction site [polypeptide binding]; other site 882884010610 GTP/Mg2+ binding site [chemical binding]; other site 882884010611 Switch I region; other site 882884010612 G2 box; other site 882884010613 G3 box; other site 882884010614 Switch II region; other site 882884010615 G4 box; other site 882884010616 G5 box; other site 882884010617 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 882884010618 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 882884010619 Antibiotic Binding Site [chemical binding]; other site 882884010620 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 882884010621 Ferritin-like domain; Region: Ferritin; pfam00210 882884010622 heme binding site [chemical binding]; other site 882884010623 ferroxidase pore; other site 882884010624 ferroxidase diiron center [ion binding]; other site 882884010625 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 882884010626 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 882884010627 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 882884010628 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 882884010629 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 882884010630 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 882884010631 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 882884010632 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 882884010633 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 882884010634 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 882884010635 protein-rRNA interface [nucleotide binding]; other site 882884010636 putative translocon binding site; other site 882884010637 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 882884010638 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...; Region: 30S_S3_KH; cd02412 882884010639 G-X-X-G motif; other site 882884010640 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 882884010641 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 882884010642 23S rRNA interface [nucleotide binding]; other site 882884010643 5S rRNA interface [nucleotide binding]; other site 882884010644 putative antibiotic binding site [chemical binding]; other site 882884010645 L25 interface [polypeptide binding]; other site 882884010646 L27 interface [polypeptide binding]; other site 882884010647 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...; Region: Ribosomal_L29_HIP; cl09943 882884010648 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 882884010649 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 882884010650 KOW motif; Region: KOW; cl00354 882884010651 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 882884010652 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 882884010653 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 882884010654 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 882884010655 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 882884010656 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 882884010657 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 882884010658 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 882884010659 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 882884010660 23S rRNA interface [nucleotide binding]; other site 882884010661 5S rRNA interface [nucleotide binding]; other site 882884010662 L27 interface [polypeptide binding]; other site 882884010663 L5 interface [polypeptide binding]; other site 882884010664 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 882884010665 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 882884010666 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 882884010667 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...; Region: Ribosomal_L30; cd01658 882884010668 23S rRNA binding site [nucleotide binding]; other site 882884010669 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 882884010670 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 882884010671 SecY translocase; Region: SecY; pfam00344 882884010672 alpha operon ribosome binding site 882884010673 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 882884010674 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 882884010675 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 882884010676 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 882884010677 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 882884010678 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 882884010679 RNA binding surface [nucleotide binding]; other site 882884010680 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 882884010681 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 882884010682 alphaNTD homodimer interface [polypeptide binding]; other site 882884010683 alphaNTD - beta interaction site [polypeptide binding]; other site 882884010684 alphaNTD - beta' interaction site [polypeptide binding]; other site 882884010685 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 882884010686 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 882884010687 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 882884010688 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 882884010689 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 882884010690 DNA binding residues [nucleotide binding] 882884010691 dimer interface [polypeptide binding]; other site 882884010692 metal binding site [ion binding]; metal-binding site 882884010693 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 882884010694 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 882884010695 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884010696 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 882884010697 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884010698 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 882884010699 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 882884010700 putative RNA binding site [nucleotide binding]; other site 882884010701 16S rRNA methyltransferase B; Provisional; Region: PRK10901 882884010702 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 882884010703 S-adenosylmethionine binding site [chemical binding]; other site 882884010704 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 882884010705 putative active site [active] 882884010706 putative cosubstrate binding site; other site 882884010707 substrate binding site [chemical binding]; other site 882884010708 catalytic site [active] 882884010709 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 882884010710 substrate binding site [chemical binding]; other site 882884010711 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(...; Region: Pep_deformylase; cd00487 882884010712 active site 882884010713 catalytic residues [active] 882884010714 metal binding site [ion binding]; metal-binding site 882884010715 hypothetical protein; Provisional; Region: PRK10736 882884010716 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 882884010717 Protein of unknown function (DUF494); Region: DUF494; cl01103 882884010718 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 882884010719 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 882884010720 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 882884010721 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 882884010722 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 882884010723 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 882884010724 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 882884010725 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 882884010726 shikimate binding site; other site 882884010727 NAD(P) binding site [chemical binding]; other site 882884010728 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 882884010729 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 882884010730 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 882884010731 trimer interface [polypeptide binding]; other site 882884010732 putative metal binding site [ion binding]; other site 882884010733 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 882884010734 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 882884010735 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 882884010736 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 882884010737 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 882884010738 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 882884010739 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 882884010740 Protein of unknown function (DUF2556); Region: DUF2556; pfam10831 882884010741 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 882884010742 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 882884010743 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 882884010744 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 882884010745 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...; Region: DUS_like_FMN; cd02801 882884010746 FMN binding site [chemical binding]; other site 882884010747 active site 882884010748 catalytic residues [active] 882884010749 substrate binding site [chemical binding]; other site 882884010750 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 882884010751 active site 882884010752 zinc binding site [ion binding]; other site 882884010753 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 882884010754 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 882884010755 Sodium:solute symporter family; Region: SSF; cl00456 882884010756 Protein of unknown function (DUF997); Region: DUF997; cl01614 882884010757 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 882884010758 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 882884010759 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 882884010760 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 882884010761 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 882884010762 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 882884010763 carboxyltransferase (CT) interaction site; other site 882884010764 biotinylation site [posttranslational modification]; other site 882884010765 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 882884010766 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 882884010767 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY...; Region: YedY_like_Moco; cd02107 882884010768 Moco binding site; other site 882884010769 metal coordination site [ion binding]; other site 882884010770 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 882884010771 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 882884010772 NADP binding site [chemical binding]; other site 882884010773 dimer interface [polypeptide binding]; other site 882884010774 regulatory protein CsrD; Provisional; Region: PRK11059 882884010775 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 882884010776 metal binding site [ion binding]; metal-binding site 882884010777 active site 882884010778 I-site; other site 882884010779 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 882884010780 rod shape-determining protein MreB; Provisional; Region: PRK13927 882884010781 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 882884010782 ATP binding site [chemical binding]; other site 882884010783 profilin binding site; other site 882884010784 rod shape-determining protein MreC; Region: mreC; TIGR00219 882884010785 rod shape-determining protein MreC; Region: MreC; pfam04085 882884010786 rod shape-determining protein MreD; Region: MreD; cl01087 882884010787 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 882884010788 active site 882884010789 dimer interface [polypeptide binding]; other site 882884010790 ribonuclease G; Provisional; Region: PRK11712 882884010791 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 882884010792 homodimer interface [polypeptide binding]; other site 882884010793 oligonucleotide binding site [chemical binding]; other site 882884010794 hypothetical protein; Provisional; Region: PRK10899 882884010795 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 882884010796 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 882884010797 transcriptional regulator; Provisional; Region: PRK10632 882884010798 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884010799 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 882884010800 putative effector binding pocket; other site 882884010801 dimerization interface [polypeptide binding]; other site 882884010802 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 882884010803 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 882884010804 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 882884010805 Fusaric acid resistance protein family; Region: FUSC; pfam04632 882884010806 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the...; Region: Barstar; cd05142 882884010807 RNAase interaction site [polypeptide binding]; other site 882884010808 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 882884010809 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 882884010810 arginine repressor; Provisional; Region: PRK05066 882884010811 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 882884010812 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 882884010813 malate dehydrogenase; Provisional; Region: PRK05086 882884010814 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 882884010815 NAD binding site [chemical binding]; other site 882884010816 dimerization interface [polypeptide binding]; other site 882884010817 Substrate binding site [chemical binding]; other site 882884010818 serine endoprotease; Provisional; Region: PRK10898 882884010819 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 882884010820 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 C-...; Region: PDZ_serine_protease; cd00987 882884010821 serine endoprotease; Provisional; Region: PRK10139 882884010822 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 882884010823 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 C-...; Region: PDZ_serine_protease; cd00987 882884010824 protein binding site [polypeptide binding]; other site 882884010825 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 C-...; Region: PDZ_serine_protease; cd00987 882884010826 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 882884010827 Predicted ATPase [General function prediction only]; Region: COG1485 882884010828 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 882884010829 23S rRNA interface [nucleotide binding]; other site 882884010830 L3 interface [polypeptide binding]; other site 882884010831 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 882884010832 stringent starvation protein A; Provisional; Region: sspA; PRK09481 882884010833 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 882884010834 C-terminal domain interface [polypeptide binding]; other site 882884010835 putative GSH binding site (G-site) [chemical binding]; other site 882884010836 dimer interface [polypeptide binding]; other site 882884010837 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_C_SspA; cd03186 882884010838 dimer interface [polypeptide binding]; other site 882884010839 N-terminal domain interface [polypeptide binding]; other site 882884010840 Stringent starvation protein B; Region: SspB; cl01120 882884010841 transcriptional regulator NanR; Provisional; Region: PRK03837 882884010842 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 882884010843 DNA-binding site [nucleotide binding]; DNA binding site 882884010844 FCD domain; Region: FCD; cl11656 882884010845 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 882884010846 N-acetylneuraminate lyase; Region: nanA; TIGR00683 882884010847 inhibitor site; inhibition site 882884010848 active site 882884010849 dimer interface [polypeptide binding]; other site 882884010850 catalytic residue [active] 882884010851 putative sialic acid transporter; Provisional; Region: PRK03893 882884010852 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 882884010853 putative substrate translocation pore; other site 882884010854 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family...; Region: NanE; cd04729 882884010855 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 882884010856 putative active site cavity [active] 882884010857 N-acetylmannosamine kinase; Provisional; Region: PRK05082 882884010858 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 882884010859 Domain of unknown function (DUF386); Region: DUF386; cl01047 882884010860 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and...; Region: Bact_CD; cd01293 882884010861 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 882884010862 active site 882884010863 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 882884010864 Sodium:solute symporter family; Region: SSF; cl00456 882884010865 Protein of unknown function (DUF1016); Region: DUF1016; cl01979 882884010866 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 882884010867 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 882884010868 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 882884010869 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 882884010870 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 882884010871 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 N-...; Region: GltS; cd00713 882884010872 active site 882884010873 dimer interface [polypeptide binding]; other site 882884010874 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 882884010875 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...; Region: GltS_FMN; cd02808 882884010876 active site 882884010877 FMN binding site [chemical binding]; other site 882884010878 substrate binding site [chemical binding]; other site 882884010879 3Fe-4S cluster binding site [ion binding]; other site 882884010880 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 882884010881 domain interface; other site 882884010882 radical SAM protein, TIGR01212 family; Region: TIGR01212 882884010883 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; cl14056 882884010884 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 882884010885 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 882884010886 putative active site [active] 882884010887 heme pocket [chemical binding]; other site 882884010888 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 trans-...; Region: HisKA; cd00082 882884010889 dimer interface [polypeptide binding]; other site 882884010890 phosphorylation site [posttranslational modification] 882884010891 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884010892 ATP binding site [chemical binding]; other site 882884010893 Mg2+ binding site [ion binding]; other site 882884010894 G-X-G motif; other site 882884010895 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884010896 active site 882884010897 phosphorylation site [posttranslational modification] 882884010898 intermolecular recognition site; other site 882884010899 dimerization interface [polypeptide binding]; other site 882884010900 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 882884010901 putative binding surface; other site 882884010902 active site 882884010903 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 882884010904 conserved cys residue [active] 882884010905 Transglycosylase; Region: Transgly; cl07896 882884010906 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 882884010907 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 882884010908 dimerization domain swap beta strand [polypeptide binding]; other site 882884010909 regulatory protein interface [polypeptide binding]; other site 882884010910 active site 882884010911 regulatory phosphorylation site [posttranslational modification]; other site 882884010912 P-loop ATPase protein family; Region: ATP_bind_2; cl10035 882884010913 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 882884010914 active site 882884010915 phosphorylation site [posttranslational modification] 882884010916 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site...; Region: RaiA; cd00552 882884010917 30S subunit binding site; other site 882884010918 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 882884010919 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 882884010920 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 882884010921 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 882884010922 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 882884010923 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 882884010924 Walker A/P-loop; other site 882884010925 ATP binding site [chemical binding]; other site 882884010926 Q-loop/lid; other site 882884010927 ABC transporter signature motif; other site 882884010928 Walker B; other site 882884010929 D-loop; other site 882884010930 H-loop/switch region; other site 882884010931 OstA-like protein; Region: OstA; cl00844 882884010932 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 882884010933 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; cl11391 882884010934 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 882884010935 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 5-...; Region: SIS_Kpsf; cd05014 882884010936 putative active site [active] 882884010937 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 882884010938 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 882884010939 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 882884010940 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 882884010941 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 882884010942 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 882884010943 Walker A/P-loop; other site 882884010944 ATP binding site [chemical binding]; other site 882884010945 Q-loop/lid; other site 882884010946 ABC transporter signature motif; other site 882884010947 Walker B; other site 882884010948 D-loop; other site 882884010949 H-loop/switch region; other site 882884010950 Domain of unknown function DUF140; Region: DUF140; cl00510 882884010951 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 882884010952 mce related protein; Region: MCE; cl03606 882884010953 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; cl01074 882884010954 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 882884010955 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 882884010956 anti sigma factor interaction site; other site 882884010957 regulatory phosphorylation site [posttranslational modification]; other site 882884010958 BolA-like protein; Region: BolA; cl00386 882884010959 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Validated; Region: PRK09369 882884010960 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 882884010961 hinge; other site 882884010962 active site 882884010963 Predicted transcriptional regulator [Transcription]; Region: Nlp; cl01357 882884010964 octaprenyl diphosphate synthase; Provisional; Region: PRK10888 882884010965 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 882884010966 substrate binding pocket [chemical binding]; other site 882884010967 chain length determination region; other site 882884010968 substrate-Mg2+ binding site; other site 882884010969 catalytic residues [active] 882884010970 aspartate-rich region 1; other site 882884010971 active site lid residues [active] 882884010972 aspartate-rich region 2; other site 882884010973 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 882884010974 EamA-like transporter family; Region: EamA; cl01037 882884010975 GTPase CgtA; Reviewed; Region: obgE; PRK12298 882884010976 GTP1/OBG; Region: GTP1_OBG; pfam01018 882884010977 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 882884010978 G1 box; other site 882884010979 GTP/Mg2+ binding site [chemical binding]; other site 882884010980 Switch I region; other site 882884010981 G2 box; other site 882884010982 G3 box; other site 882884010983 Switch II region; other site 882884010984 G4 box; other site 882884010985 G5 box; other site 882884010986 Beta-lactamase; Region: Beta-lactamase; cl01009 882884010987 PBP4 family; Region: PBP4; TIGR00666 882884010988 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 882884010989 domain; Region: GreA_GreB_N; pfam03449 882884010990 C-term; Region: GreA_GreB; pfam01272 882884010991 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 882884010992 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 882884010993 S-adenosylmethionine binding site [chemical binding]; other site 882884010994 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 882884010995 FtsH Extracellular; Region: FtsH_ext; pfam06480 882884010996 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...; Region: AAA; cd00009 882884010997 Walker A motif; other site 882884010998 ATP binding site [chemical binding]; other site 882884010999 Walker B motif; other site 882884011000 arginine finger; other site 882884011001 Peptidase family M41; Region: Peptidase_M41; pfam01434 882884011002 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 882884011003 dihydropteroate synthase; Region: DHPS; TIGR01496 882884011004 substrate binding pocket [chemical binding]; other site 882884011005 dimer interface [polypeptide binding]; other site 882884011006 inhibitor binding site; inhibition site 882884011007 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 882884011008 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 UDP-N-...; Region: GlmM; cd05802 882884011009 active site 882884011010 substrate binding site [chemical binding]; other site 882884011011 metal binding site [ion binding]; metal-binding site 882884011012 Preprotein translocase SecG subunit; Region: SecG; cl09123 882884011013 argininosuccinate synthase; Region: argG; TIGR00032 882884011014 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 882884011015 Ligand Binding Site [chemical binding]; other site 882884011016 ribosome maturation protein RimP; Reviewed; Region: PRK00092 882884011017 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 882884011018 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 882884011019 Sm1 motif; other site 882884011020 predicted subunit interaction site [polypeptide binding]; other site 882884011021 RNA binding pocket [nucleotide binding]; other site 882884011022 Sm2 motif; other site 882884011023 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 882884011024 NusA N-terminal domain; Region: NusA_N; pfam08529 882884011025 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...; Region: S1_NusA; cd04455 882884011026 RNA binding site [nucleotide binding]; other site 882884011027 homodimer interface [polypeptide binding]; other site 882884011028 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 882884011029 G-X-X-G motif; other site 882884011030 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 882884011031 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 882884011032 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 882884011033 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 882884011034 translation initiation factor IF-2; Region: IF-2; TIGR00487 882884011035 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 882884011036 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases...; Region: IF2_eIF5B; cd01887 882884011037 G1 box; other site 882884011038 putative GEF interaction site [polypeptide binding]; other site 882884011039 GTP/Mg2+ binding site [chemical binding]; other site 882884011040 Switch I region; other site 882884011041 G2 box; other site 882884011042 G3 box; other site 882884011043 Switch II region; other site 882884011044 G4 box; other site 882884011045 G5 box; other site 882884011046 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...; Region: IF2_mtIF2_II; cd03702 882884011047 Translation-initiation factor 2; Region: IF-2; pfam11987 882884011048 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...; Region: mtIF2_IVc; cd03692 882884011049 Ribosome-binding factor A; Region: RBFA; cl00542 882884011050 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 882884011051 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of...; Region: PseudoU_synth_EcTruB; cd02573 882884011052 RNA binding site [nucleotide binding]; other site 882884011053 active site 882884011054 ribosomal s15 leader 882884011055 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...; Region: Ribosomal_S15p_S13e; cd00353 882884011056 16S/18S rRNA binding site [nucleotide binding]; other site 882884011057 S13e-L30e interaction site [polypeptide binding]; other site 882884011058 25S rRNA binding site [nucleotide binding]; other site 882884011059 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 882884011060 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 882884011061 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 882884011062 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 882884011063 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 882884011064 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 882884011065 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 882884011066 putative nucleic acid binding region [nucleotide binding]; other site 882884011067 G-X-X-G motif; other site 882884011068 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 882884011069 RNA binding site [nucleotide binding]; other site 882884011070 domain interface; other site 882884011071 lipoprotein NlpI; Provisional; Region: PRK11189 882884011072 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 882884011073 binding surface 882884011074 TPR motif; other site 882884011075 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 882884011076 DEAD-like helicases superfamily; Region: DEXDc; smart00487 882884011077 ATP binding site [chemical binding]; other site 882884011078 Mg++ binding site [ion binding]; other site 882884011079 motif III; other site 882884011080 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 882884011081 nucleotide binding region [chemical binding]; other site 882884011082 ATP-binding site [chemical binding]; other site 882884011083 DbpA RNA binding domain; Region: DbpA; pfam03880 882884011084 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 882884011085 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 882884011086 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 882884011087 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 882884011088 Peptidase family U32; Region: Peptidase_U32; cl03113 882884011089 Peptidase family U32; Region: Peptidase_U32; cl03113 882884011090 SCP-2 sterol transfer family; Region: SCP2; cl01225 882884011091 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 882884011092 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 882884011093 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 882884011094 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 882884011095 proposed catalytic triad [active] 882884011096 conserved cys residue [active] 882884011097 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 882884011098 NAD binding site [chemical binding]; other site 882884011099 active site 882884011100 outer membrane lipoprotein; Provisional; Region: PRK11023 882884011101 BON domain; Region: BON; cl02771 882884011102 BON domain; Region: BON; cl02771 882884011103 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 882884011104 dimer interface [polypeptide binding]; other site 882884011105 active site 882884011106 Uncharacterised protein family UPF0102; Region: UPF0102; cl00516 882884011107 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 882884011108 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 882884011109 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 882884011110 putative ligand binding site [chemical binding]; other site 882884011111 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 882884011112 Predicted methyltransferases [General function prediction only]; Region: COG0313 882884011113 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 882884011114 hypothetical protein; Provisional; Region: PRK08185 882884011115 active site 882884011116 intersubunit interface [polypeptide binding]; other site 882884011117 zinc binding site [ion binding]; other site 882884011118 Na+ binding site [ion binding]; other site 882884011119 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 882884011120 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 882884011121 dimer interface [polypeptide binding]; other site 882884011122 active site 882884011123 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases (...; Region: SIS_AgaS_like; cd05010 882884011124 putative active site [active] 882884011125 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 882884011126 active site 882884011127 dimer interface [polypeptide binding]; other site 882884011128 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 882884011129 DNA-binding transcriptional regulator AgaR; Provisional; Region: PRK09802 882884011130 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884011131 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 882884011132 galactarate dehydratase; Region: galactar-dH20; TIGR03248 882884011133 SAF domain; Region: SAF; cl00555 882884011134 SAF domain; Region: SAF; cl00555 882884011135 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 882884011136 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 882884011137 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 882884011138 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884011139 Glycerate kinase family; Region: Gly_kinase; cl00841 882884011140 DNA-binding transcriptional activator TdcA; Provisional; Region: PRK10341 882884011141 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884011142 The C-terminal substrate binding domain of LysR-type transcriptional regulator TdcA, which is involved in the degradation of L-serine and L-threonine, contains the type 2 periplasmic binding fold; Region: PBP2_TdcA; cd08418 882884011143 putative substrate binding pocket [chemical binding]; other site 882884011144 putative dimerization interface [polypeptide binding]; other site 882884011145 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 882884011146 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 882884011147 tetramer interface [polypeptide binding]; other site 882884011148 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884011149 catalytic residue [active] 882884011150 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 882884011151 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 882884011152 Acetokinase family; Region: Acetate_kinase; cl01029 882884011153 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 882884011154 Pyruvate formate lyase 1; Region: PFL1; cd01678 882884011155 coenzyme A binding site [chemical binding]; other site 882884011156 active site 882884011157 catalytic residues [active] 882884011158 glycine loop; other site 882884011159 L-serine dehydratase TdcG; Provisional; Region: PRK15040 882884011160 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 882884011161 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 882884011162 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 882884011163 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 882884011164 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 882884011165 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 882884011166 Cupin domain; Region: Cupin_2; cl09118 882884011167 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884011168 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 882884011169 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884011170 dimerization interface [polypeptide binding]; other site 882884011171 Protein of unknown function (DUF805); Region: DUF805; cl01224 882884011172 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; cl01116 882884011173 IS2 transposase TnpB; Reviewed; Region: PRK09409 882884011174 Integrase core domain; Region: rve; cl01316 882884011175 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 882884011176 Integrase core domain; Region: rve; cl01316 882884011177 putative transposase OrfB; Reviewed; Region: PHA02517 882884011178 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; cl01116 882884011179 DoxX; Region: DoxX; cl00976 882884011180 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 882884011181 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 882884011182 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 882884011183 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 882884011184 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 882884011185 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 882884011186 DNA-binding transcriptional repressor ExuR; Provisional; Region: PRK11523 882884011187 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 882884011188 Integral membrane protein TerC family; Region: TerC; cl10468 882884011189 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 882884011190 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884011191 Protein of unknown function DUF45; Region: DUF45; cl00636 882884011192 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 882884011193 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 882884011194 S-adenosylmethionine binding site [chemical binding]; other site 882884011195 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 882884011196 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 882884011197 active site 882884011198 FMN binding site [chemical binding]; other site 882884011199 2,4-decadienoyl-CoA binding site; other site 882884011200 catalytic residue [active] 882884011201 4Fe-4S cluster binding site [ion binding]; other site 882884011202 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 882884011203 putrescine--2-oxoglutarate aminotransferase; Provisional; Region: PRK11522 882884011204 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 882884011205 inhibitor-cofactor binding pocket; inhibition site 882884011206 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884011207 catalytic residue [active] 882884011208 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 882884011209 PAS fold; Region: PAS_3; pfam08447 882884011210 putative active site [active] 882884011211 heme pocket [chemical binding]; other site 882884011212 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 connected by an extended linker. The...; Region: HAMP; cl01054 882884011213 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882884011214 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 882884011215 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 882884011216 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 connected by an extended linker. The...; Region: HAMP; cl01054 882884011217 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882884011218 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 882884011219 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884011220 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 882884011221 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 882884011222 FAD binding pocket [chemical binding]; other site 882884011223 FAD binding motif [chemical binding]; other site 882884011224 phosphate binding motif [ion binding]; other site 882884011225 NAD binding pocket [chemical binding]; other site 882884011226 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 882884011227 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 882884011228 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 882884011229 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 882884011230 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 882884011231 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 882884011232 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 882884011233 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...; Region: Sigma70_r4; cd06171 882884011234 DNA binding residues [nucleotide binding] 882884011235 DNA primase; Validated; Region: dnaG; PRK05667 882884011236 CHC2 zinc finger; Region: zf-CHC2; cl02597 882884011237 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 882884011238 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 882884011239 active site 882884011240 metal binding site [ion binding]; metal-binding site 882884011241 interdomain interaction site; other site 882884011242 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 882884011243 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 882884011244 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 882884011245 UGMP family protein; Validated; Region: PRK09604 882884011246 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 882884011247 Domain of unknown function (DUF205); Region: DUF205; cl00410 882884011248 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines...; Region: DHNA_DHNTPE; cd00534 882884011249 homooctamer interface [polypeptide binding]; other site 882884011250 active site 882884011251 Bacitracin resistance protein BacA; Region: BacA; cl00858 882884011252 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 882884011253 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 882884011254 active site 882884011255 NTP binding site [chemical binding]; other site 882884011256 metal binding triad [ion binding]; metal-binding site 882884011257 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 882884011258 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 882884011259 SH3 domain-containing protein; Provisional; Region: PRK10884 882884011260 Bacterial SH3 domain; Region: SH3_3; cl02551 882884011261 Uncharacterized conserved protein [Function unknown]; Region: COG3025 882884011262 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 882884011263 putative active site [active] 882884011264 putative metal binding residues [ion binding]; other site 882884011265 signature motif; other site 882884011266 putative triphosphate binding site [ion binding]; other site 882884011267 CHAD domain; Region: CHAD; cl10506 882884011268 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 882884011269 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 882884011270 metal binding triad; other site 882884011271 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 882884011272 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 882884011273 metal binding triad; other site 882884011274 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 882884011275 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 882884011276 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 882884011277 putative ribose interaction site [chemical binding]; other site 882884011278 putative ADP binding site [chemical binding]; other site 882884011279 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 882884011280 active site 882884011281 nucleotide binding site [chemical binding]; other site 882884011282 HIGH motif; other site 882884011283 KMSKS motif; other site 882884011284 Glycogen synthesis protein; Region: GlgS; cl11663 882884011285 Membrane fusogenic activity; Region: BMFP; cl01115 882884011286 FMN riboswitch (RFN element) 882884011287 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 882884011288 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 882884011289 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 882884011290 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 882884011291 catalytic residues [active] 882884011292 hinge region; other site 882884011293 alpha helical domain; other site 882884011294 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 882884011295 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 882884011296 ZIP Zinc transporter; Region: Zip; pfam02535 882884011297 Glutathionylspermidine synthase; Region: GSP_synth; cl00503 882884011298 Protein of unknown function (DUF1190); Region: DUF1190; cl10031 882884011299 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 882884011300 Outer membrane efflux protein; Region: OEP; pfam02321 882884011301 Outer membrane efflux protein; Region: OEP; pfam02321 882884011302 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as...; Region: ADPRase_NUDT5; cd03424 882884011303 dimer interface [polypeptide binding]; other site 882884011304 ADP-ribose binding site [chemical binding]; other site 882884011305 active site 882884011306 nudix motif; other site 882884011307 metal binding site [ion binding]; metal-binding site 882884011308 Protein of unknown function (DUF1249); Region: DUF1249; cl01223 882884011309 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 882884011310 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 882884011311 active site 882884011312 metal binding site [ion binding]; metal-binding site 882884011313 hexamer interface [polypeptide binding]; other site 882884011314 Uncharacterised protein family (UPF0227); Region: UPF0227; cl14886 882884011315 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 882884011316 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884011317 ATP binding site [chemical binding]; other site 882884011318 Mg2+ binding site [ion binding]; other site 882884011319 G-X-G motif; other site 882884011320 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 882884011321 anchoring element; other site 882884011322 dimer interface [polypeptide binding]; other site 882884011323 ATP binding site [chemical binding]; other site 882884011324 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 882884011325 active site 882884011326 metal binding site [ion binding]; metal-binding site 882884011327 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 882884011328 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 882884011329 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 882884011330 sensor protein QseC; Provisional; Region: PRK10337 882884011331 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 trans-...; Region: HisKA; cd00082 882884011332 dimer interface [polypeptide binding]; other site 882884011333 phosphorylation site [posttranslational modification] 882884011334 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 882884011335 ATP binding site [chemical binding]; other site 882884011336 Mg2+ binding site [ion binding]; other site 882884011337 G-X-G motif; other site 882884011338 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 882884011339 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 882884011340 active site 882884011341 phosphorylation site [posttranslational modification] 882884011342 intermolecular recognition site; other site 882884011343 dimerization interface [polypeptide binding]; other site 882884011344 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...; Region: trans_reg_C; cd00383 882884011345 DNA binding site [nucleotide binding] 882884011346 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 882884011347 DNA topoisomerase IV, A subunit, proteobacterial; Region: parC_Gneg; TIGR01062 882884011348 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in...; Region: TOP4c; cd00187 882884011349 CAP-like domain; other site 882884011350 Active site [active] 882884011351 primary dimer interface [polypeptide binding]; other site 882884011352 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 882884011353 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 882884011354 putative acyl-acceptor binding pocket; other site 882884011355 FtsI repressor; Provisional; Region: PRK10883 882884011356 Multicopper oxidase; Region: Cu-oxidase; cl14658 882884011357 Multicopper oxidase; Region: Cu-oxidase; cl14658 882884011358 hypothetical protein; Provisional; Region: PRK01254 882884011359 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; cl14056 882884011360 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 882884011361 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the...; Region: HIT_like; cl00228 882884011362 nucleotide binding site/active site [active] 882884011363 HIT family signature motif; other site 882884011364 catalytic residue [active] 882884011365 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 882884011366 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 882884011367 transmembrane helices; other site 882884011368 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...; Region: Aldo_ket_red; cd06660 882884011369 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 882884011370 active site 882884011371 catalytic tetrad [active] 882884011372 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 882884011373 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 882884011374 dimer interface [polypeptide binding]; other site 882884011375 active site 882884011376 metal binding site [ion binding]; metal-binding site 882884011377 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 882884011378 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882884011379 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 882884011380 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882884011381 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 882884011382 cystathionine beta-lyase; Provisional; Region: PRK08114 882884011383 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 882884011384 homodimer interface [polypeptide binding]; other site 882884011385 substrate-cofactor binding pocket; other site 882884011386 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884011387 catalytic residue [active] 882884011388 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 882884011389 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 882884011390 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 882884011391 oxidoreductase; Provisional; Region: PRK07985 882884011392 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 882884011393 NAD binding site [chemical binding]; other site 882884011394 metal binding site [ion binding]; metal-binding site 882884011395 active site 882884011396 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 882884011397 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 connected by an extended linker. The...; Region: HAMP; cl01054 882884011398 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 882884011399 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 882884011400 Protein of unknown function (DUF2623); Region: DUF2623; pfam11115 882884011401 hydrogenase 2 small subunit; Provisional; Region: PRK10468 882884011402 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 882884011403 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 882884011404 4Fe-4S binding domain; Region: Fer4; cl02805 882884011405 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl01295 882884011406 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 882884011407 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 882884011408 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 882884011409 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase...; Region: H2MP_MemB-H2up; cd06062 882884011410 putative substrate-binding site; other site 882884011411 nickel binding site [ion binding]; other site 882884011412 Protein of unknown function (DUF3457); Region: DUF3457; cl08122 882884011413 Hydrogenase expression/synthesis hypA family; Region: HypA; cl00418 882884011414 HupF/HypC family; Region: HupF_HypC; cl00394 882884011415 putative S-transferase; Provisional; Region: PRK11752 882884011416 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen...; Region: GST_N_Ure2p_like; cd03048 882884011417 C-terminal domain interface [polypeptide binding]; other site 882884011418 GSH binding site (G-site) [chemical binding]; other site 882884011419 dimer interface [polypeptide binding]; other site 882884011420 GST_C family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen...; Region: GST_C_Ure2p_like; cd03178 882884011421 dimer interface [polypeptide binding]; other site 882884011422 N-terminal domain interface [polypeptide binding]; other site 882884011423 putative substrate binding pocket (H-site) [chemical binding]; other site 882884011424 NlpC/P60 family; Region: NLPC_P60; cl11438 882884011425 Glutathionylspermidine synthase; Region: GSP_synth; cl00503 882884011426 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 882884011427 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 882884011428 Glucuronate isomerase; Region: UxaC; cl00829 882884011429 D-mannonate oxidoreductase; Provisional; Region: PRK15037 882884011430 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 882884011431 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 882884011432 mannonate dehydratase; Provisional; Region: PRK03906 882884011433 mannonate dehydratase; Region: uxuA; TIGR00695 882884011434 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 882884011435 D-galactonate transporter; Region: 2A0114; TIGR00893 882884011436 putative substrate translocation pore; other site 882884011437 Predicted amidohydrolase [General function prediction only]; Region: COG0388 882884011438 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 882884011439 putative active site [active] 882884011440 catalytic triad [active] 882884011441 putative dimer interface [polypeptide binding]; other site 882884011442 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 882884011443 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 882884011444 Protein of unknown function (DUF796); Region: DUF796; cl01226 882884011445 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 882884011446 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 882884011447 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 882884011448 NAD(P) binding site [chemical binding]; other site 882884011449 catalytic residues [active] 882884011450 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 882884011451 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 882884011452 Cupin domain; Region: Cupin_2; cl09118 882884011453 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 882884011454 Protein of unknown function (DUF3156); Region: DUF3156; pfam11354 882884011455 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...; Region: LuxR_C_like; cd06170 882884011456 DNA binding residues [nucleotide binding] 882884011457 dimerization interface [polypeptide binding]; other site 882884011458 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 882884011459 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 882884011460 FeS/SAM binding site; other site 882884011461 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 882884011462 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 882884011463 Sulfatase; Region: Sulfatase; cl10460 882884011464 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 882884011465 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884011466 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 882884011467 putative dimerization interface [polypeptide binding]; other site 882884011468 putative substrate binding pocket [chemical binding]; other site 882884011469 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 882884011470 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 882884011471 putative active site [active] 882884011472 putative catalytic site [active] 882884011473 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 882884011474 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 882884011475 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; cl01116 882884011476 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 882884011477 PemK-like protein; Region: PemK; cl00995 882884011478 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 882884011479 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 882884011480 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 882884011481 active site 882884011482 Int/Topo IB signature motif; other site 882884011483 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 882884011484 Protein of unknown function (DUF554); Region: DUF554; cl00784 882884011485 ornithine decarboxylase; Provisional; Region: PRK13578 882884011486 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 882884011487 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and...; Region: Orn_deC_like; cd00615 882884011488 homodimer interface [polypeptide binding]; other site 882884011489 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884011490 catalytic residue [active] 882884011491 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 882884011492 nucleoside transporter; Region: 2A0110; TIGR00889 882884011493 murein transglycosylase C; Provisional; Region: mltC; PRK11671 882884011494 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 882884011495 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 882884011496 N-acetyl-D-glucosamine binding site [chemical binding]; other site 882884011497 catalytic residue [active] 882884011498 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 882884011499 adenine DNA glycosylase; Provisional; Region: PRK10880 882884011500 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 882884011501 minor groove reading motif; other site 882884011502 helix-hairpin-helix signature motif; other site 882884011503 substrate binding pocket [chemical binding]; other site 882884011504 active site 882884011505 FES domain; Region: FES; smart00525 882884011506 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 882884011507 DNA binding and oxoG recognition site [nucleotide binding] 882884011508 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 882884011509 Protein with unknown function (DUF469); Region: DUF469; cl01237 882884011510 Protein of unknown function (DUF2884); Region: DUF2884; cl08135 882884011511 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cd00411 882884011512 tetramer interface [polypeptide binding]; other site 882884011513 active site/substrate binding site [active] 882884011514 HemN family oxidoreductase; Provisional; Region: PRK05660 882884011515 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 882884011516 FeS/SAM binding site; other site 882884011517 HemN C-terminal region; Region: HemN_C; pfam06969 882884011518 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 Ham1-...; Region: HAM1; cd00515 882884011519 active site 882884011520 dimerization interface [polypeptide binding]; other site 882884011521 Uncharacterised ACR, YggU family COG1872; Region: DUF167; cl00811 882884011522 YGGT family; Region: YGGT; cl00508 882884011523 YGGT family; Region: YGGT; cl00508 882884011524 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 882884011525 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 882884011526 catalytic residue [active] 882884011527 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 882884011528 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884011529 Walker A motif; other site 882884011530 ATP binding site [chemical binding]; other site 882884011531 Walker B motif; other site 882884011532 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884011533 Transcriptional regulator [Transcription]; Region: IclR; COG1414 882884011534 Uncharacterised protein family (UPF0081); Region: UPF0081; cl00525 882884011535 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 882884011536 glutathione synthetase; Provisional; Region: PRK05246 882884011537 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 882884011538 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 882884011539 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 882884011540 DNA-specific endonuclease I; Provisional; Region: PRK15137 882884011541 Endonuclease I; Region: Endonuclease_1; cl01003 882884011542 SprT homologues; Region: SprT; cl01182 882884011543 SprT-like family; Region: SprT-like; pfam10263 882884011544 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 882884011545 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 882884011546 putative substrate translocation pore; other site 882884011547 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 882884011548 S-adenosylmethionine synthetase; Validated; Region: PRK05250 882884011549 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 882884011550 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 882884011551 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 882884011552 Protein of unknown function (DUF2684); Region: DUF2684; pfam10885 882884011553 Virulence promoting factor; Region: YqgB; pfam11036 882884011554 arginine decarboxylase; Provisional; Region: PRK05354 882884011555 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 882884011556 dimer interface [polypeptide binding]; other site 882884011557 active site 882884011558 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 882884011559 catalytic residues [active] 882884011560 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 882884011561 Arginase family; Region: Arginase; cl00306 882884011562 Peptidase family M48; Region: Peptidase_M48; cl12018 882884011563 transketolase; Reviewed; Region: PRK12753 882884011564 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 882884011565 TPP-binding site [chemical binding]; other site 882884011566 dimer interface [polypeptide binding]; other site 882884011567 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 882884011568 PYR/PP interface [polypeptide binding]; other site 882884011569 dimer interface [polypeptide binding]; other site 882884011570 TPP binding site [chemical binding]; other site 882884011571 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 882884011572 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 882884011573 active site 882884011574 phosphorylation site [posttranslational modification] 882884011575 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 882884011576 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 882884011577 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_mannitol; cd05567 882884011578 active site 882884011579 P-loop; other site 882884011580 phosphorylation site [posttranslational modification] 882884011581 L-sorbose-1-phosphate reductase; Region: sorbose_phosphate_red; cd08238 882884011582 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 882884011583 putative NAD(P) binding site [chemical binding]; other site 882884011584 catalytic Zn binding site [ion binding]; other site 882884011585 Fructose-1,6-bisphosphatase/sedoheptulose 1,7-bisphosphatase and related proteins [Carbohydrate transport and metabolism]; Region: GlpX; COG1494 882884011586 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 882884011587 putative active site [active] 882884011588 Mannitol repressor; Region: MtlR; cl11450 882884011589 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 882884011590 Active site [active] 882884011591 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 882884011592 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 882884011593 Walker A/P-loop; other site 882884011594 ATP binding site [chemical binding]; other site 882884011595 Q-loop/lid; other site 882884011596 ABC transporter signature motif; other site 882884011597 Walker B; other site 882884011598 D-loop; other site 882884011599 H-loop/switch region; other site 882884011600 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 882884011601 Walker A/P-loop; other site 882884011602 ATP binding site [chemical binding]; other site 882884011603 Q-loop/lid; other site 882884011604 ABC transporter signature motif; other site 882884011605 Walker B; other site 882884011606 D-loop; other site 882884011607 H-loop/switch region; other site 882884011608 Cobalt transport protein; Region: CbiQ; cl00463 882884011609 Domain of unknown function (DUF296); Region: DUF296; cl00720 882884011610 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 882884011611 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884011612 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 882884011613 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 882884011614 substrate binding site [chemical binding]; other site 882884011615 hinge regions; other site 882884011616 ADP binding site [chemical binding]; other site 882884011617 catalytic site [active] 882884011618 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 882884011619 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 882884011620 active site 882884011621 intersubunit interface [polypeptide binding]; other site 882884011622 zinc binding site [ion binding]; other site 882884011623 Na+ binding site [ion binding]; other site 882884011624 mechanosensitive channel MscS; Provisional; Region: PRK10334 882884011625 Mechanosensitive ion channel; Region: MS_channel; pfam00924 882884011626 LysE type translocator; Region: LysE; cl00565 882884011627 Protein of unknown function (DUF541); Region: SIMPL; cl01077 882884011628 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884011629 Transcriptional regulator [Transcription]; Region: LysR; COG0583 882884011630 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 882884011631 dimerization interface [polypeptide binding]; other site 882884011632 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 882884011633 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 882884011634 methylmalonyl-CoA decarboxylase; Provisional; Region: PRK11423 882884011635 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 882884011636 substrate binding site [chemical binding]; other site 882884011637 oxyanion hole (OAH) forming residues; other site 882884011638 trimer interface [polypeptide binding]; other site 882884011639 membrane ATPase/protein kinase; Provisional; Region: PRK09435 882884011640 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 882884011641 Walker A; other site 882884011642 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 882884011643 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...; Region: MM_CoA_mutase_alpha_like; cd03679 882884011644 active site 882884011645 substrate binding site [chemical binding]; other site 882884011646 coenzyme B12 binding site [chemical binding]; other site 882884011647 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...; Region: MM_CoA_mut_B12_BD; cd02071 882884011648 B12 binding site [chemical binding]; other site 882884011649 cobalt ligand [ion binding]; other site 882884011650 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 882884011651 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884011652 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 882884011653 putative dimerization interface [polypeptide binding]; other site 882884011654 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 882884011655 tetramer (dimer of dimers) interface [polypeptide binding]; other site 882884011656 active site 882884011657 dimer interface [polypeptide binding]; other site 882884011658 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 882884011659 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 882884011660 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 882884011661 L-serine binding site [chemical binding]; other site 882884011662 ACT domain interface; other site 882884011663 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 882884011664 Cell division protein ZapA; Region: ZapA; cl01146 882884011665 Uncharacterised protein family (UPF0149); Region: UPF0149; cl01173 882884011666 proline aminopeptidase P II; Provisional; Region: PRK10879 882884011667 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 882884011668 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action...; Region: Prolidase; cd01087 882884011669 active site 882884011670 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 882884011671 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 882884011672 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 882884011673 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 882884011674 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 882884011675 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 882884011676 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 L-...; Region: GCS_H; cd06848 882884011677 lipoyl attachment site [posttranslational modification]; other site 882884011678 glycine dehydrogenase; Provisional; Region: PRK05367 882884011679 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...; Region: GDC-P; cd00613 882884011680 tetramer interface [polypeptide binding]; other site 882884011681 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884011682 catalytic residue [active] 882884011683 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...; Region: GDC-P; cd00613 882884011684 tetramer interface [polypeptide binding]; other site 882884011685 pyridoxal 5'-phosphate binding site [chemical binding]; other site 882884011686 catalytic residue [active] 882884011687 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 882884011688 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function...; Region: ASCH_yqfb_like; cd06552 882884011689 Haemolysin-III related; Region: HlyIII; cl03831 882884011690 putative global regulator; Reviewed; Region: PRK09559 882884011691 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 882884011692 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 882884011693 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 882884011694 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 882884011695 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 882884011696 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 of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 882884011697 Int/Topo IB signature motif; other site 882884011698 active site 882884011699 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 882884011700 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...; Region: DsbA_DsbC_DsbG; cd03020 882884011701 dimerization domain [polypeptide binding]; other site 882884011702 dimer interface [polypeptide binding]; other site 882884011703 catalytic residues [active] 882884011704 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 882884011705 DHH family; Region: DHH; pfam01368 882884011706 DHHA1 domain; Region: DHHA1; pfam02272 882884011707 RF-1 domain; Region: RF-1; cl02875 882884011708 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 882884011709 RF-1 domain; Region: RF-1; cl02875 882884011710 lysyl-tRNA synthetase; Reviewed; Region: PRK12445 882884011711 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-...; Region: LysRS_N; cd04322 882884011712 dimer interface [polypeptide binding]; other site 882884011713 putative anticodon binding site; other site 882884011714 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 882884011715 motif 1; other site 882884011716 active site 882884011717 motif 2; other site 882884011718 motif 3; other site 882884011719 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 882884011720 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and...; Region: IPP_Isomerase; cd02885 882884011721 active site 882884011722 metal binding site [ion binding]; metal-binding site 882884011723 nudix motif; other site 882884011724 Peptidase family M23; Region: Peptidase_M23; pfam01551 882884011725 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 882884011726 Phage integrase family; Region: Phage_integrase; pfam00589 882884011727 DNA binding site [nucleotide binding] 882884011728 Int/Topo IB signature motif; other site 882884011729 active site 882884011730 Transposase; Region: DEDD_Tnp_IS110; pfam01548 882884011731 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; cl01116 882884011732 DoxX; Region: DoxX; cl00976 882884011733 TQO small subunit DoxA; Region: DoxA; pfam07680 882884011734 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 882884011735 E-class dimer interface [polypeptide binding]; other site 882884011736 P-class dimer interface [polypeptide binding]; other site 882884011737 active site 882884011738 Cu2+ binding site [ion binding]; other site 882884011739 Zn2+ binding site [ion binding]; other site 882884011740 hypothetical protein; Provisional; Region: PRK09945 882884011741 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases...; Region: PL1_Passenger_AT; cd01343 882884011742 Autotransporter beta-domain; Region: Autotransporter; cl02365 882884011743 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 882884011744 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 882884011745 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 882884011746 High-affinity nickel-transport protein; Region: NicO; cl00964 882884011747 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 882884011748 putative metal binding site [ion binding]; other site 882884011749 putative homotetramer interface [polypeptide binding]; other site 882884011750 putative homodimer interface [polypeptide binding]; other site 882884011751 putative homodimer-homodimer interface [polypeptide binding]; other site 882884011752 putative allosteric switch controlling residues; other site 882884011753 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 882884011754 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 882884011755 putative acyltransferase; Provisional; Region: PRK05790 882884011756 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 882884011757 dimer interface [polypeptide binding]; other site 882884011758 active site 882884011759 KduI/IolB family; Region: KduI; cl01508 882884011760 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 882884011761 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 882884011762 NADP binding site [chemical binding]; other site 882884011763 homodimer interface [polypeptide binding]; other site 882884011764 active site 882884011765 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 882884011766 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 882884011767 putative substrate translocation pore; other site 882884011768 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 882884011769 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 882884011770 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884011771 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 882884011772 dimerization interface [polypeptide binding]; other site 882884011773 diaminopimelate decarboxylase; Provisional; Region: PRK11165 882884011774 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 882884011775 active site 882884011776 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 882884011777 substrate binding site [chemical binding]; other site 882884011778 catalytic residues [active] 882884011779 dimer interface [polypeptide binding]; other site 882884011780 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 882884011781 DNA binding site [nucleotide binding] 882884011782 domain linker motif; other site 882884011783 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 882884011784 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 882884011785 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 882884011786 DNA binding site [nucleotide binding] 882884011787 domain linker motif; other site 882884011788 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 882884011789 dimerization interface (closed form) [polypeptide binding]; other site 882884011790 ligand binding site [chemical binding]; other site 882884011791 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 882884011792 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 882884011793 putative acyl-acceptor binding pocket; other site 882884011794 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 882884011795 lysophospholipid transporter LplT; Provisional; Region: PRK11195 882884011796 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 882884011797 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 882884011798 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...; Region: Aldo_ket_red; cd06660 882884011799 active site 882884011800 catalytic tetrad [active] 882884011801 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 882884011802 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 882884011803 Integral membrane protein TerC family; Region: TerC; cl10468 882884011804 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex; Region: MutH_Sau3AI; cd00583 882884011805 putative DNA-binding cleft [nucleotide binding]; other site 882884011806 putative DNA clevage site; other site 882884011807 molecular lever; other site 882884011808 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...; Region: Ap4A_hydrolase_plant_like; cd03671 882884011809 putative active site [active] 882884011810 Ap4A binding site [chemical binding]; other site 882884011811 nudix motif; other site 882884011812 putative metal binding site [ion binding]; other site 882884011813 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 882884011814 GAF domain; Region: GAF; cl00853 882884011815 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 882884011816 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 882884011817 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 882884011818 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 882884011819 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 882884011820 dimerization interface [polypeptide binding]; other site 882884011821 active site 882884011822 hypothetical protein; Provisional; Region: PRK10506 882884011823 hypothetical protein; Provisional; Region: PRK10557 882884011824 Protein of unknown function (DUF2509); Region: DUF2509; cl11672 882884011825 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 882884011826 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 882884011827 protease3; Provisional; Region: PRK15101 882884011828 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 882884011829 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 882884011830 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 882884011831 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 882884011832 UvrD/REP helicase; Region: UvrD-helicase; cl14126 882884011833 UvrD/REP helicase; Region: UvrD-helicase; cl14126 882884011834 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 882884011835 Putative ATPase (DUF699); Region: DUF699; pfam05127 882884011836 UvrD/REP helicase; Region: UvrD-helicase; cl14126 882884011837 N-acetylglutamate synthase; Validated; Region: PRK05279 882884011838 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an N-...; Region: AAK_NAGS-ABP; cd04237 882884011839 putative feedback inhibition sensing region; other site 882884011840 putative nucleotide binding site [chemical binding]; other site 882884011841 putative substrate binding site [chemical binding]; other site 882884011842 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 882884011843 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 882884011844 Localisation of periplasmic protein complexes; Region: AMIN; pfam11741 882884011845 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 882884011846 active site 882884011847 metal binding site [ion binding]; metal-binding site 882884011848 murein transglycosylase A; Provisional; Region: mltA; PRK11162 882884011849 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases...; Region: lysozyme_like; cl00222 882884011850 MltA specific insert domain; Region: MltA; pfam03562 882884011851 3D domain; Region: 3D; cl01439 882884011852 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 882884011853 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-...; Region: YgdL_like; cd00755 882884011854 putative ATP binding site [chemical binding]; other site 882884011855 putative substrate interface [chemical binding]; other site 882884011856 Predicted permeases [General function prediction only]; Region: RarD; COG2962 882884011857 Fe-S metabolism associated domain; Region: SufE; cl00951 882884011858 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 882884011859 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 882884011860 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 882884011861 catalytic residue [active] 882884011862 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 882884011863 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 882884011864 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884011865 HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 882884011866 dimerization interface [polypeptide binding]; other site 882884011867 substrate binding pocket [chemical binding]; other site 882884011868 Protein of unknown function (DUF423); Region: DUF423; cl01008 882884011869 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 882884011870 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 882884011871 DNA-binding transcriptional activator FucR; Provisional; Region: PRK10411 882884011872 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 882884011873 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 882884011874 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 882884011875 L-fuculokinase; Provisional; Region: PRK10331 882884011876 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 882884011877 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 882884011878 L-fucose isomerase; Provisional; Region: fucI; PRK10991 882884011879 L-fucose isomerase (FucIase); FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose during glycolysis). L-fucose (or 6-deoxy-L-galactose) is found in blood group...; Region: L-fucose_isomerase; cd03556 882884011880 hexamer (dimer of trimers) interface [polypeptide binding]; other site 882884011881 trimer interface [polypeptide binding]; other site 882884011882 substrate binding site [chemical binding]; other site 882884011883 Mn binding site [ion binding]; other site 882884011884 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 882884011885 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 882884011886 putative substrate translocation pore; other site 882884011887 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; cd00398 882884011888 intersubunit interface [polypeptide binding]; other site 882884011889 active site 882884011890 Zn2+ binding site [ion binding]; other site 882884011891 lactaldehyde reductase; Region: lactal_redase; TIGR02638 882884011892 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 882884011893 dimer interface [polypeptide binding]; other site 882884011894 active site 882884011895 metal binding site [ion binding]; metal-binding site 882884011896 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 882884011897 putative active site [active] 882884011898 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 882884011899 putative DNA binding site [nucleotide binding]; other site 882884011900 putative metal binding site [ion binding]; other site 882884011901 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 882884011902 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 882884011903 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 882884011904 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 882884011905 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 882884011906 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 882884011907 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 882884011908 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 882884011909 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 882884011910 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 882884011911 Syd protein; Region: Syd; cl06405 882884011912 Domain of unknown function, DUF446; Region: DUF446; cl01187 882884011913 tRNA pseudouridine isomerase C: Pseudouridine synthases catalyze the isomerization of specific uridines in an tRNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. TruC makes psi65 in tRNAs. This psi residue is not...; Region: PseudoU_synth_TruC; cd02563 882884011914 probable active site [active] 882884011915 NADPH-dependent FMN reductase; Region: FMN_red; cl00438