-- dump date 20140620_005949 -- class Genbank::misc_feature -- table misc_feature_note -- id note 231023000001 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 231023000002 Transposase; Region: HTH_Tnp_1; pfam01527 231023000003 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 231023000004 ParB-like nuclease domain; Region: ParB; smart00470 231023000005 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 231023000006 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 231023000007 P-loop; other site 231023000008 Magnesium ion binding site [ion binding]; other site 231023000009 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 231023000010 Magnesium ion binding site [ion binding]; other site 231023000011 Initiator Replication protein; Region: Rep_3; pfam01051 231023000012 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 231023000013 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 231023000014 Family description; Region: UvrD_C_2; pfam13538 231023000015 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 231023000016 substrate binding site [chemical binding]; other site 231023000017 active site 231023000018 putative catalytic residue [active] 231023000019 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 231023000020 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 231023000021 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 231023000022 active site 231023000023 metal binding site [ion binding]; metal-binding site 231023000024 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 231023000025 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023000026 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023000027 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 231023000028 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 231023000029 NAD(P) binding site [chemical binding]; other site 231023000030 catalytic residues [active] 231023000031 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 231023000032 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 231023000033 catalytic Zn binding site [ion binding]; other site 231023000034 NAD binding site [chemical binding]; other site 231023000035 structural Zn binding site [ion binding]; other site 231023000036 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 231023000037 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 231023000038 dimer interface [polypeptide binding]; other site 231023000039 active site 231023000040 salicylate 1-monooxygenase; Region: salicylate_mono; TIGR03219 231023000041 benzoate transport; Region: 2A0115; TIGR00895 231023000042 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 231023000043 putative substrate translocation pore; other site 231023000044 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 231023000045 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 231023000046 Uncharacterized conserved protein [Function unknown]; Region: COG1262 231023000047 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 231023000048 Sulfatase; Region: Sulfatase; pfam00884 231023000049 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 231023000050 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 231023000051 DNA binding residues [nucleotide binding] 231023000052 dimer interface [polypeptide binding]; other site 231023000053 putative metal binding site [ion binding]; other site 231023000054 Heavy-metal-associated domain; Region: HMA; pfam00403 231023000055 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 231023000056 lipoprotein signal peptidase; Provisional; Region: PRK14776 231023000057 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 231023000058 Transposase; Region: DDE_Tnp_ISL3; pfam01610 231023000059 outer membrane porin, OprD family; Region: OprD; pfam03573 231023000060 outer membrane porin, OprD family; Region: OprD; pfam03573 231023000061 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 231023000062 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 231023000063 DNA binding site [nucleotide binding] 231023000064 dimer interface [polypeptide binding]; other site 231023000065 active site 231023000066 Int/Topo IB signature motif; other site 231023000067 AAA domain; Region: AAA_30; pfam13604 231023000068 ParB-like nuclease domain; Region: ParB; smart00470 231023000069 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 231023000070 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 231023000071 generic binding surface II; other site 231023000072 generic binding surface I; other site 231023000073 zinc-finger of acetyl-transferase ESCO; Region: zf-C2H2_3; pfam13878 231023000074 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 231023000075 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 231023000076 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 231023000077 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 231023000078 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 231023000079 tandem repeat interface [polypeptide binding]; other site 231023000080 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 231023000081 oligomer interface [polypeptide binding]; other site 231023000082 active site residues [active] 231023000083 PemK-like protein; Region: PemK; cl00995 231023000084 Methyltransferase domain; Region: Methyltransf_27; pfam13708 231023000085 Methyltransferase domain; Region: Methyltransf_26; pfam13659 231023000086 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 231023000087 Coenzyme A binding pocket [chemical binding]; other site 231023000088 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 231023000089 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 231023000090 active site 231023000091 Int/Topo IB signature motif; other site 231023000092 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 231023000093 active site 231023000094 DNA binding site [nucleotide binding] 231023000095 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 231023000096 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 231023000097 catalytic loop [active] 231023000098 iron binding site [ion binding]; other site 231023000099 The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons using oxygen as the oxidant. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S]...; Region: O2ase_reductase_like; cd06187 231023000100 FAD binding pocket [chemical binding]; other site 231023000101 FAD binding motif [chemical binding]; other site 231023000102 phosphate binding motif [ion binding]; other site 231023000103 beta-alpha-beta structure motif; other site 231023000104 NAD binding pocket [chemical binding]; other site 231023000105 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 231023000106 [2Fe-2S] cluster binding site [ion binding]; other site 231023000107 anthranilate 1,2-dioxygenase, large subunit; Region: anthran_1_2_A; TIGR03228 231023000108 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 231023000109 [2Fe-2S] cluster binding site [ion binding]; other site 231023000110 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 231023000111 beta subunit interface [polypeptide binding]; other site 231023000112 alpha subunit interface [polypeptide binding]; other site 231023000113 active site 231023000114 substrate binding site [chemical binding]; other site 231023000115 Fe binding site [ion binding]; other site 231023000116 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 231023000117 inter-subunit interface; other site 231023000118 2,3-dihydroxy-2,3-dihydrophenylpropionate dehydrogenase; Provisional; Region: PRK06200 231023000119 cis-biphenyl-2,3-dihydrodiol-2,3-dehydrogenase (BphB)-like, classical (c) SDRs; Region: BphB-like_SDR_c; cd05348 231023000120 NAD binding site [chemical binding]; other site 231023000121 active site 231023000122 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 231023000123 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 231023000124 NAD(P) binding site [chemical binding]; other site 231023000125 catalytic residues [active] 231023000126 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 231023000127 N-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_N_like; cd07252 231023000128 C-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_C_like; cd07237 231023000129 active site 231023000130 Fe binding site [ion binding]; other site 231023000131 OmpW family; Region: OmpW; cl17427 231023000132 Trans-o-hydroxybenzylidenepyruvate hydratase-aldolase (HBPHA) and trans-2'-carboxybenzalpyruvate hydratase-aldolase (CBPHA); Region: CHBPH_aldolase; cd00952 231023000133 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 231023000134 putative active site [active] 231023000135 catalytic residue [active] 231023000136 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 231023000137 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 231023000138 putative catalytic residue [active] 231023000139 HTH domain; Region: HTH_22; pfam13309 231023000140 Transposase domain (DUF772); Region: DUF772; pfam05598 231023000141 Predicted transcriptional regulators [Transcription]; Region: COG1733 231023000142 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 231023000143 glutathionine S-transferase; Provisional; Region: PRK10542 231023000144 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 231023000145 C-terminal domain interface [polypeptide binding]; other site 231023000146 GSH binding site (G-site) [chemical binding]; other site 231023000147 dimer interface [polypeptide binding]; other site 231023000148 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 231023000149 dimer interface [polypeptide binding]; other site 231023000150 N-terminal domain interface [polypeptide binding]; other site 231023000151 substrate binding pocket (H-site) [chemical binding]; other site 231023000152 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 231023000153 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 231023000154 FMN binding site [chemical binding]; other site 231023000155 active site 231023000156 substrate binding site [chemical binding]; other site 231023000157 catalytic residue [active] 231023000158 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 231023000159 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 231023000160 active site 231023000161 catalytic tetrad [active] 231023000162 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 231023000163 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 231023000164 ATP-binding site [chemical binding]; other site 231023000165 SdiA-regulated; Region: SdiA-regulated; pfam06977 231023000166 SdiA-regulated; Region: SdiA-regulated; cd09971 231023000167 putative active site [active] 231023000168 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 231023000169 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 231023000170 Ligand Binding Site [chemical binding]; other site 231023000171 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 231023000172 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023000173 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 231023000174 dimerization interface [polypeptide binding]; other site 231023000175 substrate binding pocket [chemical binding]; other site 231023000176 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 231023000177 classical (c) SDRs; Region: SDR_c; cd05233 231023000178 NAD(P) binding site [chemical binding]; other site 231023000179 active site 231023000180 HTH-like domain; Region: HTH_21; pfam13276 231023000181 Integrase core domain; Region: rve; pfam00665 231023000182 Transposase; Region: HTH_Tnp_1; cl17663 231023000183 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 231023000184 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 231023000185 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 231023000186 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023000187 dimerization interface [polypeptide binding]; other site 231023000188 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 231023000189 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 231023000190 dimer interface [polypeptide binding]; other site 231023000191 putative CheW interface [polypeptide binding]; other site 231023000192 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cd00491 231023000193 active site 1 [active] 231023000194 dimer interface [polypeptide binding]; other site 231023000195 hexamer interface [polypeptide binding]; other site 231023000196 active site 2 [active] 231023000197 4-oxalocrotonate decarboxylase; Region: catechol_dmpH; TIGR03218 231023000198 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 231023000199 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 231023000200 active site 231023000201 catalytic residues [active] 231023000202 metal binding site [ion binding]; metal-binding site 231023000203 DmpG-like communication domain; Region: DmpG_comm; pfam07836 231023000204 acetaldehyde dehydrogenase; Validated; Region: PRK08300 231023000205 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 231023000206 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 231023000207 2-oxopent-4-enoate hydratase; Region: catechol_dmpE; TIGR03220 231023000208 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 231023000209 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 231023000210 2-hydroxymuconic semialdehyde dehydrogenase; Region: OH_muco_semi_DH; TIGR03216 231023000211 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 231023000212 NAD binding site [chemical binding]; other site 231023000213 catalytic residues [active] 231023000214 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 231023000215 N-terminal domain of catechol 2,3-dioxygenase; Region: 2_3_CTD_N; cd07265 231023000216 tetramer interface [polypeptide binding]; other site 231023000217 C-terminal domain of catechol 2,3-dioxygenase; Region: 2_3_CTD_C; cd07243 231023000218 tetramer interface [polypeptide binding]; other site 231023000219 active site 231023000220 Fe binding site [ion binding]; other site 231023000221 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 231023000222 catalytic loop [active] 231023000223 iron binding site [ion binding]; other site 231023000224 salicylate 1-monooxygenase; Region: salicylate_mono; TIGR03219 231023000225 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 231023000226 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 231023000227 non-specific DNA binding site [nucleotide binding]; other site 231023000228 salt bridge; other site 231023000229 sequence-specific DNA binding site [nucleotide binding]; other site 231023000230 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 231023000231 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 231023000232 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 231023000233 catalytic residues [active] 231023000234 catalytic nucleophile [active] 231023000235 Presynaptic Site I dimer interface [polypeptide binding]; other site 231023000236 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 231023000237 Synaptic Flat tetramer interface [polypeptide binding]; other site 231023000238 Synaptic Site I dimer interface [polypeptide binding]; other site 231023000239 DNA binding site [nucleotide binding] 231023000240 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 231023000241 DNA-binding interface [nucleotide binding]; DNA binding site 231023000242 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 231023000243 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 231023000244 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023000245 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023000246 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 231023000247 substrate binding pocket [chemical binding]; other site 231023000248 dimerization interface [polypeptide binding]; other site 231023000249 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 231023000250 active site 231023000251 Int/Topo IB signature motif; other site 231023000252 HTH-like domain; Region: HTH_21; pfam13276 231023000253 Integrase core domain; Region: rve; pfam00665 231023000254 DDE domain; Region: DDE_Tnp_IS240; pfam13610 231023000255 Integrase core domain; Region: rve_3; pfam13683 231023000256 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 231023000257 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 231023000258 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 231023000259 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 231023000260 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 231023000261 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 231023000262 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 231023000263 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023000264 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023000265 Walker A/P-loop; other site 231023000266 Walker A/P-loop; other site 231023000267 ATP binding site [chemical binding]; other site 231023000268 ATP binding site [chemical binding]; other site 231023000269 Q-loop/lid; other site 231023000270 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 231023000271 ABC transporter signature motif; other site 231023000272 Walker B; other site 231023000273 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 231023000274 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 231023000275 Walker A motif; other site 231023000276 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 231023000277 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 231023000278 homodimer interface [polypeptide binding]; other site 231023000279 substrate-cofactor binding pocket; other site 231023000280 catalytic residue [active] 231023000281 Predicted membrane protein [Function unknown]; Region: COG4125 231023000282 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 231023000283 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 231023000284 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023000285 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023000286 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 231023000287 dimerization interface [polypeptide binding]; other site 231023000288 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 231023000289 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 231023000290 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 231023000291 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 231023000292 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 231023000293 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 231023000294 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023000295 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 231023000296 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 231023000297 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 231023000298 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 231023000299 homotrimer interaction site [polypeptide binding]; other site 231023000300 putative active site [active] 231023000301 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 231023000302 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 231023000303 conserved cys residue [active] 231023000304 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023000305 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 231023000306 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 231023000307 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 231023000308 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023000309 substrate binding pocket [chemical binding]; other site 231023000310 membrane-bound complex binding site; other site 231023000311 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 231023000312 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 231023000313 active site 231023000314 non-prolyl cis peptide bond; other site 231023000315 hypothetical protein; Provisional; Region: PRK11171 231023000316 Cupin domain; Region: Cupin_2; pfam07883 231023000317 Cupin domain; Region: Cupin_2; pfam07883 231023000318 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 231023000319 hydrophobic ligand binding site; other site 231023000320 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 231023000321 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 231023000322 putative DNA binding site [nucleotide binding]; other site 231023000323 putative Zn2+ binding site [ion binding]; other site 231023000324 AsnC family; Region: AsnC_trans_reg; pfam01037 231023000325 ornithine cyclodeaminase; Validated; Region: PRK07589 231023000326 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 231023000327 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023000328 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023000329 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 231023000330 dimerization interface [polypeptide binding]; other site 231023000331 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 231023000332 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 231023000333 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 231023000334 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 231023000335 NAD(P) binding site [chemical binding]; other site 231023000336 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 231023000337 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 231023000338 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 231023000339 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023000340 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 231023000341 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 231023000342 DNA binding residues [nucleotide binding] 231023000343 putative dimer interface [polypeptide binding]; other site 231023000344 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 231023000345 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 231023000346 active site 231023000347 catalytic residues [active] 231023000348 metal binding site [ion binding]; metal-binding site 231023000349 MgtC family; Region: MgtC; pfam02308 231023000350 Protein of unknown function (DUF3203); Region: DUF3203; pfam11462 231023000351 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 231023000352 4Fe-4S binding domain; Region: Fer4_5; pfam12801 231023000353 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 231023000354 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 231023000355 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023000356 DNA-binding site [nucleotide binding]; DNA binding site 231023000357 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 231023000358 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023000359 homodimer interface [polypeptide binding]; other site 231023000360 catalytic residue [active] 231023000361 PAS fold; Region: PAS_4; pfam08448 231023000362 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023000363 dimer interface [polypeptide binding]; other site 231023000364 phosphorylation site [posttranslational modification] 231023000365 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023000366 ATP binding site [chemical binding]; other site 231023000367 Mg2+ binding site [ion binding]; other site 231023000368 G-X-G motif; other site 231023000369 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023000370 active site 231023000371 phosphorylation site [posttranslational modification] 231023000372 intermolecular recognition site; other site 231023000373 dimerization interface [polypeptide binding]; other site 231023000374 PAS fold; Region: PAS_7; pfam12860 231023000375 PAS fold; Region: PAS_4; pfam08448 231023000376 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023000377 ATP binding site [chemical binding]; other site 231023000378 Mg2+ binding site [ion binding]; other site 231023000379 G-X-G motif; other site 231023000380 Response regulator receiver domain; Region: Response_reg; pfam00072 231023000381 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023000382 active site 231023000383 phosphorylation site [posttranslational modification] 231023000384 intermolecular recognition site; other site 231023000385 dimerization interface [polypeptide binding]; other site 231023000386 short chain dehydrogenase; Provisional; Region: PRK06123 231023000387 classical (c) SDRs; Region: SDR_c; cd05233 231023000388 NAD(P) binding site [chemical binding]; other site 231023000389 active site 231023000390 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 231023000391 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 231023000392 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 231023000393 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 231023000394 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 231023000395 HlyD family secretion protein; Region: HlyD_3; pfam13437 231023000396 MarR family; Region: MarR_2; cl17246 231023000397 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 231023000398 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 231023000399 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023000400 active site 231023000401 phosphorylation site [posttranslational modification] 231023000402 intermolecular recognition site; other site 231023000403 dimerization interface [polypeptide binding]; other site 231023000404 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 231023000405 DNA binding residues [nucleotide binding] 231023000406 dimerization interface [polypeptide binding]; other site 231023000407 PAS domain S-box; Region: sensory_box; TIGR00229 231023000408 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023000409 putative active site [active] 231023000410 heme pocket [chemical binding]; other site 231023000411 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023000412 dimer interface [polypeptide binding]; other site 231023000413 phosphorylation site [posttranslational modification] 231023000414 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023000415 ATP binding site [chemical binding]; other site 231023000416 G-X-G motif; other site 231023000417 acyl-CoA synthetase; Validated; Region: PRK08162 231023000418 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 231023000419 acyl-activating enzyme (AAE) consensus motif; other site 231023000420 putative active site [active] 231023000421 AMP binding site [chemical binding]; other site 231023000422 putative CoA binding site [chemical binding]; other site 231023000423 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 231023000424 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 231023000425 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 231023000426 active site 231023000427 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 231023000428 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 231023000429 FecR protein; Region: FecR; pfam04773 231023000430 Predicted permease [General function prediction only]; Region: COG2056 231023000431 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 231023000432 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; cl17322 231023000433 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023000434 dimerization interface [polypeptide binding]; other site 231023000435 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 231023000436 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 231023000437 dimer interface [polypeptide binding]; other site 231023000438 putative CheW interface [polypeptide binding]; other site 231023000439 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 231023000440 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 231023000441 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023000442 dimer interface [polypeptide binding]; other site 231023000443 conserved gate region; other site 231023000444 ABC-ATPase subunit interface; other site 231023000445 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023000446 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023000447 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 231023000448 putative dimerization interface [polypeptide binding]; other site 231023000449 Predicted permeases [General function prediction only]; Region: COG0679 231023000450 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 231023000451 SCP: SCP-like extracellular protein domain, found in eukaryotes and prokaryotes. This family includes plant pathogenesis-related protein 1 (PR-1), which accumulates after infections with pathogens, and may act as an anti-fungal agent or be involved in...; Region: SCP; cl00133 231023000452 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 231023000453 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 231023000454 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 231023000455 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 231023000456 conserved cys residue [active] 231023000457 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023000458 LysE type translocator; Region: LysE; cl00565 231023000459 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 231023000460 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 231023000461 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023000462 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023000463 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 231023000464 putative effector binding pocket; other site 231023000465 dimerization interface [polypeptide binding]; other site 231023000466 Cupin domain; Region: Cupin_2; cl17218 231023000467 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 231023000468 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 231023000469 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 231023000470 Trp docking motif [polypeptide binding]; other site 231023000471 putative active site [active] 231023000472 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 231023000473 acetylornithine deacetylase; Provisional; Region: PRK07522 231023000474 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 231023000475 metal binding site [ion binding]; metal-binding site 231023000476 putative dimer interface [polypeptide binding]; other site 231023000477 Uncharacterized conserved protein [Function unknown]; Region: COG3342 231023000478 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 231023000479 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 231023000480 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 231023000481 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 231023000482 homotrimer interaction site [polypeptide binding]; other site 231023000483 putative active site [active] 231023000484 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 231023000485 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 231023000486 NAD(P) binding site [chemical binding]; other site 231023000487 active site 231023000488 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 231023000489 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 231023000490 active site 231023000491 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 231023000492 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023000493 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 231023000494 dimerization interface [polypeptide binding]; other site 231023000495 Secretin and TonB N terminus short domain; Region: STN; smart00965 231023000496 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 231023000497 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 231023000498 N-terminal plug; other site 231023000499 ligand-binding site [chemical binding]; other site 231023000500 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 231023000501 FecR protein; Region: FecR; pfam04773 231023000502 RNA polymerase sigma factor; Provisional; Region: PRK12528 231023000503 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 231023000504 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 231023000505 DNA binding residues [nucleotide binding] 231023000506 phosphoglucomutase; Validated; Region: PRK07564 231023000507 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 231023000508 active site 231023000509 substrate binding site [chemical binding]; other site 231023000510 metal binding site [ion binding]; metal-binding site 231023000511 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 231023000512 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 231023000513 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 231023000514 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 231023000515 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 231023000516 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 231023000517 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023000518 metal binding site [ion binding]; metal-binding site 231023000519 active site 231023000520 I-site; other site 231023000521 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 231023000522 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 231023000523 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 231023000524 Protein export membrane protein; Region: SecD_SecF; cl14618 231023000525 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 231023000526 Protein export membrane protein; Region: SecD_SecF; cl14618 231023000527 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 231023000528 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 231023000529 HlyD family secretion protein; Region: HlyD_3; pfam13437 231023000530 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 231023000531 dimer interface [polypeptide binding]; other site 231023000532 catalytic triad [active] 231023000533 peroxidatic and resolving cysteines [active] 231023000534 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 231023000535 putative substrate translocation pore; other site 231023000536 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 231023000537 serine transporter; Region: stp; TIGR00814 231023000538 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 231023000539 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 231023000540 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023000541 homodimer interface [polypeptide binding]; other site 231023000542 catalytic residue [active] 231023000543 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 231023000544 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 231023000545 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 231023000546 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 231023000547 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023000548 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 231023000549 substrate binding pocket [chemical binding]; other site 231023000550 membrane-bound complex binding site; other site 231023000551 hinge residues; other site 231023000552 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 231023000553 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023000554 dimer interface [polypeptide binding]; other site 231023000555 conserved gate region; other site 231023000556 putative PBP binding loops; other site 231023000557 ABC-ATPase subunit interface; other site 231023000558 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 231023000559 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 231023000560 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023000561 dimer interface [polypeptide binding]; other site 231023000562 putative PBP binding loops; other site 231023000563 ABC-ATPase subunit interface; other site 231023000564 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 231023000565 hydroxyglutarate oxidase; Provisional; Region: PRK11728 231023000566 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 231023000567 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 231023000568 Walker A/P-loop; other site 231023000569 ATP binding site [chemical binding]; other site 231023000570 Q-loop/lid; other site 231023000571 ABC transporter signature motif; other site 231023000572 Walker B; other site 231023000573 D-loop; other site 231023000574 H-loop/switch region; other site 231023000575 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 231023000576 active site residue [active] 231023000577 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 231023000578 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023000579 active site 231023000580 phosphorylation site [posttranslational modification] 231023000581 intermolecular recognition site; other site 231023000582 dimerization interface [polypeptide binding]; other site 231023000583 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 231023000584 DNA binding residues [nucleotide binding] 231023000585 dimerization interface [polypeptide binding]; other site 231023000586 PAS fold; Region: PAS; pfam00989 231023000587 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023000588 putative active site [active] 231023000589 heme pocket [chemical binding]; other site 231023000590 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 231023000591 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023000592 dimer interface [polypeptide binding]; other site 231023000593 phosphorylation site [posttranslational modification] 231023000594 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023000595 ATP binding site [chemical binding]; other site 231023000596 Mg2+ binding site [ion binding]; other site 231023000597 G-X-G motif; other site 231023000598 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 231023000599 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023000600 active site 231023000601 phosphorylation site [posttranslational modification] 231023000602 intermolecular recognition site; other site 231023000603 dimerization interface [polypeptide binding]; other site 231023000604 Uncharacterized conserved protein [Function unknown]; Region: COG3287 231023000605 FIST N domain; Region: FIST; pfam08495 231023000606 FIST C domain; Region: FIST_C; pfam10442 231023000607 Gram-negative porin; Region: Porin_4; pfam13609 231023000608 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 231023000609 active site 231023000610 motif I; other site 231023000611 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 231023000612 motif II; other site 231023000613 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14263 231023000614 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 231023000615 Walker A/P-loop; other site 231023000616 ATP binding site [chemical binding]; other site 231023000617 Q-loop/lid; other site 231023000618 ABC transporter signature motif; other site 231023000619 Walker B; other site 231023000620 D-loop; other site 231023000621 H-loop/switch region; other site 231023000622 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 231023000623 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023000624 dimer interface [polypeptide binding]; other site 231023000625 conserved gate region; other site 231023000626 putative PBP binding loops; other site 231023000627 ABC-ATPase subunit interface; other site 231023000628 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 231023000629 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023000630 dimer interface [polypeptide binding]; other site 231023000631 conserved gate region; other site 231023000632 putative PBP binding loops; other site 231023000633 ABC-ATPase subunit interface; other site 231023000634 phosphate ABC transporter, phosphate-binding protein; Region: 3a0107s03; TIGR00975 231023000635 MAPEG family; Region: MAPEG; pfam01124 231023000636 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 231023000637 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 231023000638 non-specific DNA binding site [nucleotide binding]; other site 231023000639 salt bridge; other site 231023000640 sequence-specific DNA binding site [nucleotide binding]; other site 231023000641 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 231023000642 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 231023000643 D-galactonate transporter; Region: 2A0114; TIGR00893 231023000644 putative substrate translocation pore; other site 231023000645 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 231023000646 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 231023000647 putative active site [active] 231023000648 metal binding site [ion binding]; metal-binding site 231023000649 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023000650 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023000651 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 231023000652 dimerization interface [polypeptide binding]; other site 231023000653 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 231023000654 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 231023000655 dimerization interface [polypeptide binding]; other site 231023000656 putative DNA binding site [nucleotide binding]; other site 231023000657 putative Zn2+ binding site [ion binding]; other site 231023000658 AsnC family; Region: AsnC_trans_reg; pfam01037 231023000659 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 231023000660 Predicted membrane protein [Function unknown]; Region: COG4541 231023000661 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 231023000662 Ligand Binding Site [chemical binding]; other site 231023000663 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 231023000664 Ligand Binding Site [chemical binding]; other site 231023000665 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 231023000666 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023000667 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 231023000668 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 231023000669 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 231023000670 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 231023000671 putative substrate translocation pore; other site 231023000672 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 231023000673 magnesium-transporting ATPase; Provisional; Region: PRK15122 231023000674 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 231023000675 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 231023000676 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 231023000677 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 231023000678 Soluble P-type ATPase [General function prediction only]; Region: COG4087 231023000679 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 231023000680 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023000681 dimerization interface [polypeptide binding]; other site 231023000682 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 231023000683 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 231023000684 dimer interface [polypeptide binding]; other site 231023000685 putative CheW interface [polypeptide binding]; other site 231023000686 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 231023000687 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023000688 DNA-binding site [nucleotide binding]; DNA binding site 231023000689 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 231023000690 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023000691 homodimer interface [polypeptide binding]; other site 231023000692 catalytic residue [active] 231023000693 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 231023000694 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 231023000695 catalytic loop [active] 231023000696 iron binding site [ion binding]; other site 231023000697 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 231023000698 FAD binding pocket [chemical binding]; other site 231023000699 FAD binding motif [chemical binding]; other site 231023000700 phosphate binding motif [ion binding]; other site 231023000701 beta-alpha-beta structure motif; other site 231023000702 NAD binding pocket [chemical binding]; other site 231023000703 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 231023000704 active site 231023000705 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 231023000706 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 231023000707 Coenzyme A binding pocket [chemical binding]; other site 231023000708 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 231023000709 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 231023000710 ANTAR domain; Region: ANTAR; pfam03861 231023000711 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 231023000712 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 231023000713 ligand binding site [chemical binding]; other site 231023000714 regulator interaction site; other site 231023000715 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 231023000716 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023000717 Walker A motif; other site 231023000718 ATP binding site [chemical binding]; other site 231023000719 Walker B motif; other site 231023000720 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 231023000721 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 231023000722 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 231023000723 multimer interface [polypeptide binding]; other site 231023000724 active site 231023000725 catalytic triad [active] 231023000726 dimer interface [polypeptide binding]; other site 231023000727 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 231023000728 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 231023000729 dimer interface [polypeptide binding]; other site 231023000730 active site 231023000731 catalytic residue [active] 231023000732 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 231023000733 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 231023000734 binding surface 231023000735 TPR motif; other site 231023000736 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 231023000737 binding surface 231023000738 TPR motif; other site 231023000739 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 231023000740 endo-1,4-D-glucanase; Provisional; Region: PRK11097 231023000741 cellulose synthase regulator protein; Provisional; Region: PRK11114 231023000742 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 231023000743 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 231023000744 DXD motif; other site 231023000745 PilZ domain; Region: PilZ; pfam07238 231023000746 YhjQ protein; Region: YhjQ; pfam06564 231023000747 Protein of unknown function (DUF2629); Region: DUF2629; pfam10945 231023000748 cellulose synthase operon protein YhjU; Region: cellulose_yhjU; TIGR03368 231023000749 Protein of unknown function (DUF2819); Region: DUF2819; cl17862 231023000750 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 231023000751 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 231023000752 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023000753 Walker A/P-loop; other site 231023000754 ATP binding site [chemical binding]; other site 231023000755 Q-loop/lid; other site 231023000756 ABC transporter signature motif; other site 231023000757 Walker B; other site 231023000758 D-loop; other site 231023000759 H-loop/switch region; other site 231023000760 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 231023000761 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 231023000762 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 231023000763 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 231023000764 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 231023000765 Protein of unknown function (DUF3121); Region: DUF3121; pfam11319 231023000766 Protein of unknown function (DUF770); Region: DUF770; pfam05591 231023000767 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 231023000768 Protein of unknown function (DUF877); Region: DUF877; pfam05943 231023000769 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 231023000770 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 231023000771 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 231023000772 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 231023000773 FHA domain; Region: FHA; pfam00498 231023000774 phosphopeptide binding site; other site 231023000775 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 231023000776 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 231023000777 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 231023000778 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 231023000779 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 231023000780 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 231023000781 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 231023000782 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 231023000783 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 231023000784 Protein of unknown function (DUF3303); Region: DUF3303; pfam11746 231023000785 PAAR motif; Region: PAAR_motif; pfam05488 231023000786 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 231023000787 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 231023000788 Bacterial transcriptional regulator; Region: IclR; pfam01614 231023000789 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 231023000790 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 231023000791 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 231023000792 shikimate binding site; other site 231023000793 NAD(P) binding site [chemical binding]; other site 231023000794 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12843 231023000795 Predicted oxidoreductase [General function prediction only]; Region: COG3573 231023000796 NIPSNAP; Region: NIPSNAP; pfam07978 231023000797 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 231023000798 Predicted oxidoreductase [General function prediction only]; Region: COG3573 231023000799 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 231023000800 D-galactonate transporter; Region: 2A0114; TIGR00893 231023000801 putative substrate translocation pore; other site 231023000802 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 231023000803 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 231023000804 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 231023000805 Transcriptional regulator [Transcription]; Region: IclR; COG1414 231023000806 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 231023000807 Bacterial transcriptional regulator; Region: IclR; pfam01614 231023000808 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 231023000809 Predicted oxidoreductase [General function prediction only]; Region: COG3573 231023000810 Cache domain; Region: Cache_1; pfam02743 231023000811 GAF domain; Region: GAF_2; pfam13185 231023000812 GAF domain; Region: GAF_3; pfam13492 231023000813 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 231023000814 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 231023000815 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 231023000816 NAD(P) binding site [chemical binding]; other site 231023000817 catalytic residues [active] 231023000818 putative aminotransferase; Provisional; Region: PRK12403 231023000819 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 231023000820 inhibitor-cofactor binding pocket; inhibition site 231023000821 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023000822 catalytic residue [active] 231023000823 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 231023000824 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 231023000825 DNA binding residues [nucleotide binding] 231023000826 dimerization interface [polypeptide binding]; other site 231023000827 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 231023000828 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 231023000829 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 231023000830 dimer interface [polypeptide binding]; other site 231023000831 NADP binding site [chemical binding]; other site 231023000832 catalytic residues [active] 231023000833 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 231023000834 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 231023000835 active site 231023000836 putative substrate binding pocket [chemical binding]; other site 231023000837 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 231023000838 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 231023000839 Coenzyme A binding pocket [chemical binding]; other site 231023000840 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 231023000841 heme binding pocket [chemical binding]; other site 231023000842 heme ligand [chemical binding]; other site 231023000843 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 231023000844 hypothetical protein; Provisional; Region: PRK10649 231023000845 Sulfatase; Region: Sulfatase; pfam00884 231023000846 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 231023000847 Protein of unknown function (DUF330); Region: DUF330; pfam03886 231023000848 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 231023000849 mce related protein; Region: MCE; pfam02470 231023000850 mce related protein; Region: MCE; pfam02470 231023000851 mce related protein; Region: MCE; pfam02470 231023000852 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 231023000853 Paraquat-inducible protein A; Region: PqiA; pfam04403 231023000854 Paraquat-inducible protein A; Region: PqiA; pfam04403 231023000855 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023000856 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023000857 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 231023000858 putative substrate binding pocket [chemical binding]; other site 231023000859 dimerization interface [polypeptide binding]; other site 231023000860 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 231023000861 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 231023000862 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 231023000863 putative substrate translocation pore; other site 231023000864 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 231023000865 dimer interface [polypeptide binding]; other site 231023000866 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 231023000867 metal binding site [ion binding]; metal-binding site 231023000868 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 231023000869 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 231023000870 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 231023000871 Leucine-rich repeats; other site 231023000872 Substrate binding site [chemical binding]; other site 231023000873 Leucine rich repeat; Region: LRR_8; pfam13855 231023000874 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 231023000875 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 231023000876 Family description; Region: UvrD_C_2; pfam13538 231023000877 Pirin-related protein [General function prediction only]; Region: COG1741 231023000878 Pirin; Region: Pirin; pfam02678 231023000879 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 231023000880 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 231023000881 acyl-activating enzyme (AAE) consensus motif; other site 231023000882 AMP binding site [chemical binding]; other site 231023000883 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 231023000884 Acyltransferase family; Region: Acyl_transf_3; pfam01757 231023000885 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 231023000886 Isochorismatase family; Region: Isochorismatase; pfam00857 231023000887 catalytic triad [active] 231023000888 conserved cis-peptide bond; other site 231023000889 Animal heme peroxidases and related proteins; Region: An_peroxidase_like; cl14561 231023000890 Uncharacterized bacterial family of heme peroxidases; Region: An_peroxidase_bacterial_2; cd09821 231023000891 putative heme binding site [chemical binding]; other site 231023000892 putative substrate binding site [chemical binding]; other site 231023000893 Animal heme peroxidases and related proteins; Region: An_peroxidase_like; cl14561 231023000894 Uncharacterized bacterial family of heme peroxidases; Region: An_peroxidase_bacterial_2; cd09821 231023000895 putative heme binding site [chemical binding]; other site 231023000896 putative substrate binding site [chemical binding]; other site 231023000897 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 231023000898 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 231023000899 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 231023000900 Walker A/P-loop; other site 231023000901 ATP binding site [chemical binding]; other site 231023000902 Q-loop/lid; other site 231023000903 ABC transporter signature motif; other site 231023000904 Walker B; other site 231023000905 D-loop; other site 231023000906 H-loop/switch region; other site 231023000907 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 231023000908 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 231023000909 lipoyl-biotinyl attachment site [posttranslational modification]; other site 231023000910 HlyD family secretion protein; Region: HlyD_3; pfam13437 231023000911 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 231023000912 PAS domain S-box; Region: sensory_box; TIGR00229 231023000913 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023000914 putative active site [active] 231023000915 heme pocket [chemical binding]; other site 231023000916 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 231023000917 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023000918 metal binding site [ion binding]; metal-binding site 231023000919 active site 231023000920 I-site; other site 231023000921 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 231023000922 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 231023000923 Chromate transporter; Region: Chromate_transp; pfam02417 231023000924 Methyltransferase domain; Region: Methyltransf_23; pfam13489 231023000925 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 231023000926 S-adenosylmethionine binding site [chemical binding]; other site 231023000927 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 231023000928 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 231023000929 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 231023000930 dimer interface [polypeptide binding]; other site 231023000931 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 231023000932 active site 231023000933 Fe binding site [ion binding]; other site 231023000934 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 231023000935 metabolite-proton symporter; Region: 2A0106; TIGR00883 231023000936 putative substrate translocation pore; other site 231023000937 tyrosine decarboxylase; Region: PLN02880 231023000938 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 231023000939 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 231023000940 catalytic residue [active] 231023000941 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023000942 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023000943 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 231023000944 substrate binding pocket [chemical binding]; other site 231023000945 dimerization interface [polypeptide binding]; other site 231023000946 hypothetical protein; Provisional; Region: PRK12378 231023000947 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 231023000948 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 231023000949 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 231023000950 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 231023000951 putative substrate translocation pore; other site 231023000952 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 231023000953 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023000954 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 231023000955 dimerization interface [polypeptide binding]; other site 231023000956 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 231023000957 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 231023000958 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 231023000959 S-adenosylmethionine binding site [chemical binding]; other site 231023000960 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 231023000961 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 231023000962 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023000963 DNA-binding site [nucleotide binding]; DNA binding site 231023000964 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 231023000965 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023000966 homodimer interface [polypeptide binding]; other site 231023000967 catalytic residue [active] 231023000968 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 231023000969 metal binding site [ion binding]; metal-binding site 231023000970 WYL domain; Region: WYL; pfam13280 231023000971 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 231023000972 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 231023000973 putative NAD(P) binding site [chemical binding]; other site 231023000974 putative active site [active] 231023000975 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023000976 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 231023000977 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 231023000978 dimerization interface [polypeptide binding]; other site 231023000979 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 231023000980 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 231023000981 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 231023000982 putative C-terminal domain interface [polypeptide binding]; other site 231023000983 putative GSH binding site (G-site) [chemical binding]; other site 231023000984 putative dimer interface [polypeptide binding]; other site 231023000985 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 231023000986 putative N-terminal domain interface [polypeptide binding]; other site 231023000987 putative dimer interface [polypeptide binding]; other site 231023000988 putative substrate binding pocket (H-site) [chemical binding]; other site 231023000989 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 231023000990 Major Facilitator Superfamily; Region: MFS_1; pfam07690 231023000991 putative substrate translocation pore; other site 231023000992 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023000993 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_10; cd08480 231023000994 putative effector binding pocket; other site 231023000995 putative dimerization interface [polypeptide binding]; other site 231023000996 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 231023000997 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 231023000998 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 231023000999 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 231023001000 active site 231023001001 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 231023001002 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 231023001003 dimerization interface [polypeptide binding]; other site 231023001004 NAD binding site [chemical binding]; other site 231023001005 ligand binding site [chemical binding]; other site 231023001006 catalytic site [active] 231023001007 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 231023001008 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 231023001009 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 231023001010 homodimer interface [polypeptide binding]; other site 231023001011 substrate-cofactor binding pocket; other site 231023001012 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023001013 catalytic residue [active] 231023001014 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 231023001015 Predicted ATPase [General function prediction only]; Region: COG4637 231023001016 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023001017 Walker A/P-loop; other site 231023001018 ATP binding site [chemical binding]; other site 231023001019 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 231023001020 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 231023001021 Zn2+ binding site [ion binding]; other site 231023001022 Mg2+ binding site [ion binding]; other site 231023001023 Secretin and TonB N terminus short domain; Region: STN; smart00965 231023001024 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 231023001025 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 231023001026 N-terminal plug; other site 231023001027 ligand-binding site [chemical binding]; other site 231023001028 glutaminase; Provisional; Region: PRK00971 231023001029 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 231023001030 benzoate transport; Region: 2A0115; TIGR00895 231023001031 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 231023001032 putative substrate translocation pore; other site 231023001033 protocatechuate 4,5-dioxygenase; Provisional; Region: PRK13367 231023001034 The N-terminal domain of the Class III extradiol dioxygenase, Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate; Region: Gallate_Doxase_N; cd07950 231023001035 putative active site [active] 231023001036 Fe(II) binding site [ion binding]; other site 231023001037 putative dimer interface [polypeptide binding]; other site 231023001038 The C-terminal domain of Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate; Region: Gallate_dioxygenase_C; cd07923 231023001039 putative dimer interface [polypeptide binding]; other site 231023001040 putative N- and C-terminal domain interface [polypeptide binding]; other site 231023001041 outer membrane porin, OprD family; Region: OprD; pfam03573 231023001042 outer membrane porin, OprD family; Region: OprD; pfam03573 231023001043 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023001044 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023001045 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 231023001046 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023001047 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 231023001048 putative dimerization interface [polypeptide binding]; other site 231023001049 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 231023001050 hypothetical protein; Provisional; Region: PRK09262 231023001051 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 231023001052 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 231023001053 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 231023001054 homodecamer interface [polypeptide binding]; other site 231023001055 GTP cyclohydrolase I; Provisional; Region: PLN03044 231023001056 active site 231023001057 putative catalytic site residues [active] 231023001058 zinc binding site [ion binding]; other site 231023001059 GTP-CH-I/GFRP interaction surface; other site 231023001060 Protein of unknown function, DUF393; Region: DUF393; pfam04134 231023001061 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 231023001062 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 231023001063 NAD(P) binding site [chemical binding]; other site 231023001064 active site 231023001065 Predicted small integral membrane protein (DUF2165); Region: DUF2165; cl02290 231023001066 GAF domain; Region: GAF; pfam01590 231023001067 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 231023001068 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 231023001069 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023001070 metal binding site [ion binding]; metal-binding site 231023001071 active site 231023001072 I-site; other site 231023001073 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 231023001074 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 231023001075 active site 1 [active] 231023001076 dimer interface [polypeptide binding]; other site 231023001077 hexamer interface [polypeptide binding]; other site 231023001078 active site 2 [active] 231023001079 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 231023001080 classical (c) SDRs; Region: SDR_c; cd05233 231023001081 NAD(P) binding site [chemical binding]; other site 231023001082 active site 231023001083 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023001084 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023001085 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 231023001086 putative effector binding pocket; other site 231023001087 dimerization interface [polypeptide binding]; other site 231023001088 integrase; Provisional; Region: PRK09692 231023001089 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 231023001090 active site 231023001091 Int/Topo IB signature motif; other site 231023001092 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 231023001093 Transposase; Region: DEDD_Tnp_IS110; pfam01548 231023001094 hypothetical protein; Provisional; Region: PRK07482 231023001095 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 231023001096 inhibitor-cofactor binding pocket; inhibition site 231023001097 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023001098 catalytic residue [active] 231023001099 succinic semialdehyde dehydrogenase; Region: PLN02278 231023001100 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 231023001101 tetramerization interface [polypeptide binding]; other site 231023001102 NAD(P) binding site [chemical binding]; other site 231023001103 catalytic residues [active] 231023001104 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 231023001105 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 231023001106 putative DNA binding site [nucleotide binding]; other site 231023001107 putative Zn2+ binding site [ion binding]; other site 231023001108 AsnC family; Region: AsnC_trans_reg; pfam01037 231023001109 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 231023001110 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 231023001111 putative active site [active] 231023001112 Zn binding site [ion binding]; other site 231023001113 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 231023001114 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 231023001115 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 231023001116 active site 231023001117 ectoine utilization protein EutC; Validated; Region: PRK08291 231023001118 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 231023001119 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 231023001120 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 231023001121 tetramer interface [polypeptide binding]; other site 231023001122 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023001123 catalytic residue [active] 231023001124 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 231023001125 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023001126 DNA-binding site [nucleotide binding]; DNA binding site 231023001127 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 231023001128 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023001129 homodimer interface [polypeptide binding]; other site 231023001130 catalytic residue [active] 231023001131 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 231023001132 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023001133 substrate binding pocket [chemical binding]; other site 231023001134 membrane-bound complex binding site; other site 231023001135 hinge residues; other site 231023001136 amine acid ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family; Region: HEQRo_perm_3TM; TIGR01726 231023001137 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 231023001138 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023001139 putative PBP binding loops; other site 231023001140 dimer interface [polypeptide binding]; other site 231023001141 ABC-ATPase subunit interface; other site 231023001142 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 231023001143 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023001144 dimer interface [polypeptide binding]; other site 231023001145 conserved gate region; other site 231023001146 putative PBP binding loops; other site 231023001147 ABC-ATPase subunit interface; other site 231023001148 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 231023001149 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 231023001150 Walker A/P-loop; other site 231023001151 ATP binding site [chemical binding]; other site 231023001152 Q-loop/lid; other site 231023001153 ABC transporter signature motif; other site 231023001154 Walker B; other site 231023001155 D-loop; other site 231023001156 H-loop/switch region; other site 231023001157 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 231023001158 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 231023001159 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 231023001160 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 231023001161 putative active site [active] 231023001162 putative NTP binding site [chemical binding]; other site 231023001163 putative nucleic acid binding site [nucleotide binding]; other site 231023001164 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 231023001165 Transposase domain (DUF772); Region: DUF772; pfam05598 231023001166 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 231023001167 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 231023001168 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 231023001169 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 231023001170 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 231023001171 Sulfate transporter family; Region: Sulfate_transp; pfam00916 231023001172 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 231023001173 chromosome condensation membrane protein; Provisional; Region: PRK14196 231023001174 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 231023001175 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 231023001176 dimer interface [polypeptide binding]; other site 231023001177 substrate binding site [chemical binding]; other site 231023001178 metal binding sites [ion binding]; metal-binding site 231023001179 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 231023001180 Low molecular weight phosphatase family; Region: LMWPc; cd00115 231023001181 active site 231023001182 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 231023001183 dimerization interface [polypeptide binding]; other site 231023001184 putative Zn2+ binding site [ion binding]; other site 231023001185 putative DNA binding site [nucleotide binding]; other site 231023001186 Low molecular weight phosphatase family; Region: LMWPc; cd00115 231023001187 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 231023001188 active site 231023001189 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 231023001190 arsenical-resistance protein; Region: acr3; TIGR00832 231023001191 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 231023001192 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 231023001193 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 231023001194 active site 231023001195 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 231023001196 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 231023001197 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 231023001198 Major Facilitator Superfamily; Region: MFS_1; pfam07690 231023001199 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 231023001200 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 231023001201 Cyd operon protein YbgE (Cyd_oper_YbgE); Region: Cyd_oper_YbgE; cl11451 231023001202 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 231023001203 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 231023001204 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 231023001205 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 231023001206 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 231023001207 PAS fold; Region: PAS_4; pfam08448 231023001208 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023001209 putative active site [active] 231023001210 heme pocket [chemical binding]; other site 231023001211 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 231023001212 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023001213 Walker A motif; other site 231023001214 ATP binding site [chemical binding]; other site 231023001215 Walker B motif; other site 231023001216 arginine finger; other site 231023001217 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 231023001218 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 231023001219 Putative phosphatase (DUF442); Region: DUF442; cl17385 231023001220 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 231023001221 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 231023001222 OsmC-like protein; Region: OsmC; pfam02566 231023001223 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 231023001224 dimerization interface [polypeptide binding]; other site 231023001225 putative DNA binding site [nucleotide binding]; other site 231023001226 putative Zn2+ binding site [ion binding]; other site 231023001227 Predicted transporter component [General function prediction only]; Region: COG2391 231023001228 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 231023001229 Sulphur transport; Region: Sulf_transp; pfam04143 231023001230 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 231023001231 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 231023001232 active site residue [active] 231023001233 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 231023001234 active site residue [active] 231023001235 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 231023001236 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 231023001237 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 231023001238 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 231023001239 Cache domain; Region: Cache_1; pfam02743 231023001240 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 231023001241 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023001242 DNA-binding site [nucleotide binding]; DNA binding site 231023001243 FCD domain; Region: FCD; pfam07729 231023001244 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 231023001245 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 231023001246 tetrameric interface [polypeptide binding]; other site 231023001247 NAD binding site [chemical binding]; other site 231023001248 catalytic residues [active] 231023001249 substrate binding site [chemical binding]; other site 231023001250 hydrogenase nickel incorporation protein; Validated; Region: hypA; PRK03681 231023001251 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 231023001252 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 231023001253 FMN-binding pocket [chemical binding]; other site 231023001254 flavin binding motif; other site 231023001255 phosphate binding motif [ion binding]; other site 231023001256 beta-alpha-beta structure motif; other site 231023001257 NAD binding pocket [chemical binding]; other site 231023001258 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 231023001259 catalytic loop [active] 231023001260 iron binding site [ion binding]; other site 231023001261 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 231023001262 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 231023001263 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 231023001264 Helix-turn-helix domain; Region: HTH_38; pfam13936 231023001265 Integrase core domain; Region: rve; pfam00665 231023001266 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 231023001267 Transposase domain (DUF772); Region: DUF772; pfam05598 231023001268 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 231023001269 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 231023001270 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 231023001271 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 231023001272 P-loop; other site 231023001273 Magnesium ion binding site [ion binding]; other site 231023001274 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 231023001275 Magnesium ion binding site [ion binding]; other site 231023001276 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 231023001277 ParB-like nuclease domain; Region: ParBc; pfam02195 231023001278 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 231023001279 integrating conjugative element protein, PFL_4669 family; Region: ICE_PFL4669; TIGR03761 231023001280 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 231023001281 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 231023001282 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 231023001283 dimer interface [polypeptide binding]; other site 231023001284 ssDNA binding site [nucleotide binding]; other site 231023001285 tetramer (dimer of dimers) interface [polypeptide binding]; other site 231023001286 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 231023001287 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 231023001288 non-specific DNA binding site [nucleotide binding]; other site 231023001289 salt bridge; other site 231023001290 sequence-specific DNA binding site [nucleotide binding]; other site 231023001291 DNA topoisomerase III; Provisional; Region: PRK07726 231023001292 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 231023001293 active site 231023001294 putative interdomain interaction site [polypeptide binding]; other site 231023001295 putative metal-binding site [ion binding]; other site 231023001296 putative nucleotide binding site [chemical binding]; other site 231023001297 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 231023001298 domain I; other site 231023001299 DNA binding groove [nucleotide binding] 231023001300 phosphate binding site [ion binding]; other site 231023001301 domain II; other site 231023001302 domain III; other site 231023001303 nucleotide binding site [chemical binding]; other site 231023001304 catalytic site [active] 231023001305 domain IV; other site 231023001306 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 231023001307 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 231023001308 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 231023001309 MPN+ (JAMM) motif; other site 231023001310 Zinc-binding site [ion binding]; other site 231023001311 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 231023001312 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 231023001313 integrating conjugative element protein, PFL_4695 family; Region: ICE_PFL_4695; TIGR03765 231023001314 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 231023001315 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 231023001316 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 231023001317 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 231023001318 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 231023001319 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 231023001320 integrating conjugative element membrane protein, PFL_4702 family; Region: conj_TIGR03745 231023001321 Protein of unknown function (DUF3487); Region: DUF3487; pfam11990 231023001322 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 231023001323 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 231023001324 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 231023001325 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 231023001326 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 231023001327 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 231023001328 Protein of unknown function (DUF327); Region: DUF327; cl00753 231023001329 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 231023001330 Walker A motif; other site 231023001331 ATP binding site [chemical binding]; other site 231023001332 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 231023001333 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 231023001334 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 231023001335 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 231023001336 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 231023001337 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 231023001338 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 231023001339 Putative helicase; Region: TraI_2; pfam07514 231023001340 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 231023001341 Transposase; Region: HTH_Tnp_1; pfam01527 231023001342 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 231023001343 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cl17565 231023001344 Tellurium resistance protein; Region: Tellurium_res; pfam10138 231023001345 Bacterial SH3 domain; Region: SH3_3; pfam08239 231023001346 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 231023001347 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 231023001348 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 231023001349 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 231023001350 putative metal binding site [ion binding]; other site 231023001351 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 231023001352 metal ion-dependent adhesion site (MIDAS); other site 231023001353 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 231023001354 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 231023001355 putative metal binding site [ion binding]; other site 231023001356 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 231023001357 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 231023001358 putative metal binding site [ion binding]; other site 231023001359 Integral membrane protein TerC family; Region: TerC; cl10468 231023001360 tellurite resistance protein terB; Region: terB; cd07176 231023001361 putative metal binding site [ion binding]; other site 231023001362 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 231023001363 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 231023001364 putative metal binding site [ion binding]; other site 231023001365 Uncharacterized protein involved in stress response [General function prediction only]; Region: COG4110 231023001366 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 231023001367 putative metal binding site [ion binding]; other site 231023001368 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 231023001369 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 231023001370 putative metal binding site [ion binding]; other site 231023001371 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 231023001372 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 231023001373 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 231023001374 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 231023001375 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 231023001376 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 231023001377 active site 231023001378 Protein of unknown function (DUF3706); Region: DUF3706; pfam12500 231023001379 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 231023001380 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 231023001381 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 231023001382 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 231023001383 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 231023001384 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 231023001385 DNA binding residues [nucleotide binding] 231023001386 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 231023001387 IHF dimer interface [polypeptide binding]; other site 231023001388 IHF - DNA interface [nucleotide binding]; other site 231023001389 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 231023001390 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 231023001391 putative tRNA-binding site [nucleotide binding]; other site 231023001392 B3/4 domain; Region: B3_4; pfam03483 231023001393 tRNA synthetase B5 domain; Region: B5; smart00874 231023001394 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 231023001395 dimer interface [polypeptide binding]; other site 231023001396 motif 1; other site 231023001397 motif 3; other site 231023001398 motif 2; other site 231023001399 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 231023001400 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 231023001401 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 231023001402 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 231023001403 dimer interface [polypeptide binding]; other site 231023001404 motif 1; other site 231023001405 active site 231023001406 motif 2; other site 231023001407 motif 3; other site 231023001408 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 231023001409 23S rRNA binding site [nucleotide binding]; other site 231023001410 L21 binding site [polypeptide binding]; other site 231023001411 L13 binding site [polypeptide binding]; other site 231023001412 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 231023001413 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 231023001414 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 231023001415 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 231023001416 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 231023001417 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 231023001418 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 231023001419 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 231023001420 active site 231023001421 dimer interface [polypeptide binding]; other site 231023001422 motif 1; other site 231023001423 motif 2; other site 231023001424 motif 3; other site 231023001425 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 231023001426 anticodon binding site; other site 231023001427 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 231023001428 DNA-binding site [nucleotide binding]; DNA binding site 231023001429 RNA-binding motif; other site 231023001430 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 231023001431 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 231023001432 active site 231023001433 tetramer interface [polypeptide binding]; other site 231023001434 D-ribose pyranase; Provisional; Region: PRK11797 231023001435 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 231023001436 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 231023001437 substrate binding site [chemical binding]; other site 231023001438 dimer interface [polypeptide binding]; other site 231023001439 ATP binding site [chemical binding]; other site 231023001440 Transcriptional regulators [Transcription]; Region: PurR; COG1609 231023001441 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 231023001442 DNA binding site [nucleotide binding] 231023001443 domain linker motif; other site 231023001444 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 231023001445 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 231023001446 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 231023001447 TM-ABC transporter signature motif; other site 231023001448 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 231023001449 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 231023001450 Walker A/P-loop; other site 231023001451 ATP binding site [chemical binding]; other site 231023001452 Q-loop/lid; other site 231023001453 ABC transporter signature motif; other site 231023001454 Walker B; other site 231023001455 D-loop; other site 231023001456 H-loop/switch region; other site 231023001457 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 231023001458 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 231023001459 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 231023001460 ligand binding site [chemical binding]; other site 231023001461 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cd00411 231023001462 homodimer interface [polypeptide binding]; other site 231023001463 active site 231023001464 PAS domain S-box; Region: sensory_box; TIGR00229 231023001465 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023001466 putative active site [active] 231023001467 heme pocket [chemical binding]; other site 231023001468 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 231023001469 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023001470 Walker A motif; other site 231023001471 ATP binding site [chemical binding]; other site 231023001472 Walker B motif; other site 231023001473 arginine finger; other site 231023001474 cyanate hydratase; Validated; Region: PRK02866 231023001475 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 231023001476 oligomer interface [polypeptide binding]; other site 231023001477 active site 231023001478 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 231023001479 Protein of unknown function (DUF1654); Region: DUF1654; pfam07867 231023001480 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 231023001481 DNA-specific endonuclease I; Provisional; Region: PRK15137 231023001482 HD domain; Region: HD_4; pfam13328 231023001483 Sporulation related domain; Region: SPOR; pfam05036 231023001484 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 231023001485 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 231023001486 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_C39A; cd02549 231023001487 putative active site [active] 231023001488 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 231023001489 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 231023001490 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023001491 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 231023001492 putative dimerization interface [polypeptide binding]; other site 231023001493 serine/threonine transporter SstT; Provisional; Region: PRK13628 231023001494 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 231023001495 Protein of unknown function, DUF480; Region: DUF480; pfam04337 231023001496 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 231023001497 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 231023001498 catalytic residue [active] 231023001499 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 231023001500 catalytic residues [active] 231023001501 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 231023001502 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 231023001503 peroxiredoxin; Region: AhpC; TIGR03137 231023001504 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 231023001505 dimer interface [polypeptide binding]; other site 231023001506 decamer (pentamer of dimers) interface [polypeptide binding]; other site 231023001507 catalytic triad [active] 231023001508 peroxidatic and resolving cysteines [active] 231023001509 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 231023001510 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 231023001511 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 231023001512 FAD binding site [chemical binding]; other site 231023001513 substrate binding site [chemical binding]; other site 231023001514 catalytic base [active] 231023001515 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 231023001516 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023001517 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 231023001518 substrate binding pocket [chemical binding]; other site 231023001519 dimerization interface [polypeptide binding]; other site 231023001520 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 231023001521 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 231023001522 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 231023001523 catalytic residue [active] 231023001524 RES domain; Region: RES; pfam08808 231023001525 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 231023001526 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 231023001527 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 231023001528 FMN binding site [chemical binding]; other site 231023001529 dimer interface [polypeptide binding]; other site 231023001530 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023001531 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023001532 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 231023001533 putative effector binding pocket; other site 231023001534 dimerization interface [polypeptide binding]; other site 231023001535 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 231023001536 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 231023001537 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023001538 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023001539 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 231023001540 putative arabinose transporter; Provisional; Region: PRK03545 231023001541 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 231023001542 putative substrate translocation pore; other site 231023001543 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 231023001544 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 231023001545 putative NAD(P) binding site [chemical binding]; other site 231023001546 putative substrate binding site [chemical binding]; other site 231023001547 catalytic Zn binding site [ion binding]; other site 231023001548 structural Zn binding site [ion binding]; other site 231023001549 dimer interface [polypeptide binding]; other site 231023001550 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 231023001551 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 231023001552 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023001553 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023001554 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 231023001555 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 231023001556 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 231023001557 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 231023001558 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 231023001559 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 231023001560 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 231023001561 Coenzyme A binding pocket [chemical binding]; other site 231023001562 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 231023001563 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 231023001564 N-terminal plug; other site 231023001565 ligand-binding site [chemical binding]; other site 231023001566 Predicted membrane protein [Function unknown]; Region: COG3503 231023001567 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 231023001568 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 231023001569 putative ligand binding residues [chemical binding]; other site 231023001570 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 231023001571 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 231023001572 dimer interface [polypeptide binding]; other site 231023001573 putative PBP binding regions; other site 231023001574 ABC-ATPase subunit interface; other site 231023001575 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 231023001576 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 231023001577 Walker A/P-loop; other site 231023001578 ATP binding site [chemical binding]; other site 231023001579 Q-loop/lid; other site 231023001580 ABC transporter signature motif; other site 231023001581 Walker B; other site 231023001582 D-loop; other site 231023001583 H-loop/switch region; other site 231023001584 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 231023001585 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 231023001586 Coenzyme A binding pocket [chemical binding]; other site 231023001587 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 231023001588 Cache domain; Region: Cache_1; pfam02743 231023001589 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 231023001590 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023001591 metal binding site [ion binding]; metal-binding site 231023001592 active site 231023001593 I-site; other site 231023001594 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 231023001595 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 231023001596 P-loop; other site 231023001597 Magnesium ion binding site [ion binding]; other site 231023001598 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 231023001599 Magnesium ion binding site [ion binding]; other site 231023001600 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 231023001601 metabolite-proton symporter; Region: 2A0106; TIGR00883 231023001602 putative substrate translocation pore; other site 231023001603 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 231023001604 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 231023001605 HlyD family secretion protein; Region: HlyD_3; pfam13437 231023001606 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 231023001607 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 231023001608 Dehydroquinase class II; Region: DHquinase_II; pfam01220 231023001609 trimer interface [polypeptide binding]; other site 231023001610 active site 231023001611 dimer interface [polypeptide binding]; other site 231023001612 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 231023001613 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 231023001614 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 231023001615 shikimate binding site; other site 231023001616 NAD(P) binding site [chemical binding]; other site 231023001617 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 231023001618 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 231023001619 catalytic residues [active] 231023001620 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 231023001621 osmolarity response regulator; Provisional; Region: ompR; PRK09468 231023001622 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023001623 active site 231023001624 phosphorylation site [posttranslational modification] 231023001625 intermolecular recognition site; other site 231023001626 dimerization interface [polypeptide binding]; other site 231023001627 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 231023001628 DNA binding site [nucleotide binding] 231023001629 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 231023001630 dimer interface [polypeptide binding]; other site 231023001631 phosphorylation site [posttranslational modification] 231023001632 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023001633 ATP binding site [chemical binding]; other site 231023001634 Mg2+ binding site [ion binding]; other site 231023001635 G-X-G motif; other site 231023001636 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 231023001637 Predicted membrane protein [Function unknown]; Region: COG2259 231023001638 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 231023001639 hypothetical protein; Provisional; Region: PRK05409 231023001640 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 231023001641 EF-hand domain pair; Region: EF_hand_5; pfam13499 231023001642 Ca2+ binding site [ion binding]; other site 231023001643 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 231023001644 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 231023001645 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 231023001646 Leucine-rich repeats; other site 231023001647 Leucine rich repeat; Region: LRR_8; pfam13855 231023001648 E3 ubiquitin-protein ligase SspH2; Provisional; Region: PRK15387 231023001649 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 231023001650 Leucine rich repeat; Region: LRR_8; pfam13855 231023001651 DNA polymerase II; Reviewed; Region: PRK05762 231023001652 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 231023001653 active site 231023001654 catalytic site [active] 231023001655 substrate binding site [chemical binding]; other site 231023001656 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 231023001657 active site 231023001658 metal-binding site 231023001659 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 231023001660 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 231023001661 putative substrate translocation pore; other site 231023001662 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023001663 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023001664 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_7; cd08476 231023001665 putative effector binding pocket; other site 231023001666 putative dimerization interface [polypeptide binding]; other site 231023001667 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023001668 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023001669 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 231023001670 dimerization interface [polypeptide binding]; other site 231023001671 YqcI/YcgG family; Region: YqcI_YcgG; pfam08892 231023001672 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 231023001673 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 231023001674 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 231023001675 Predicted membrane protein [Function unknown]; Region: COG4392 231023001676 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 231023001677 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 231023001678 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023001679 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023001680 Protein of unknown function (DUF461); Region: DUF461; pfam04314 231023001681 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 231023001682 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 231023001683 Cu(I) binding site [ion binding]; other site 231023001684 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 231023001685 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 231023001686 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 231023001687 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 231023001688 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 231023001689 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 231023001690 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 231023001691 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 231023001692 substrate binding pocket [chemical binding]; other site 231023001693 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 231023001694 B12 binding site [chemical binding]; other site 231023001695 cobalt ligand [ion binding]; other site 231023001696 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 231023001697 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 231023001698 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_13; cd06324 231023001699 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 231023001700 putative ligand binding site [chemical binding]; other site 231023001701 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 231023001702 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 231023001703 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 231023001704 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 231023001705 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 231023001706 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 231023001707 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 231023001708 active site 231023001709 catalytic tetrad [active] 231023001710 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 231023001711 Major Facilitator Superfamily; Region: MFS_1; pfam07690 231023001712 putative substrate translocation pore; other site 231023001713 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 231023001714 putative substrate translocation pore; other site 231023001715 Major Facilitator Superfamily; Region: MFS_1; pfam07690 231023001716 Cupin domain; Region: Cupin_2; cl17218 231023001717 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023001718 Helix-turn-helix domain; Region: HTH_18; pfam12833 231023001719 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023001720 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 231023001721 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 231023001722 active site 231023001723 Zn binding site [ion binding]; other site 231023001724 Spore Coat Protein U domain; Region: SCPU; pfam05229 231023001725 Spore Coat Protein U domain; Region: SCPU; pfam05229 231023001726 PapC N-terminal domain; Region: PapC_N; pfam13954 231023001727 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 231023001728 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 231023001729 PapC C-terminal domain; Region: PapC_C; pfam13953 231023001730 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 231023001731 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 231023001732 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 231023001733 Spore Coat Protein U domain; Region: SCPU; pfam05229 231023001734 Spore Coat Protein U domain; Region: SCPU; pfam05229 231023001735 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 231023001736 GAF domain; Region: GAF; pfam01590 231023001737 Phytochrome region; Region: PHY; pfam00360 231023001738 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023001739 dimer interface [polypeptide binding]; other site 231023001740 phosphorylation site [posttranslational modification] 231023001741 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023001742 ATP binding site [chemical binding]; other site 231023001743 Mg2+ binding site [ion binding]; other site 231023001744 G-X-G motif; other site 231023001745 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 231023001746 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023001747 active site 231023001748 phosphorylation site [posttranslational modification] 231023001749 intermolecular recognition site; other site 231023001750 dimerization interface [polypeptide binding]; other site 231023001751 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 231023001752 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023001753 active site 231023001754 phosphorylation site [posttranslational modification] 231023001755 intermolecular recognition site; other site 231023001756 dimerization interface [polypeptide binding]; other site 231023001757 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023001758 PAS fold; Region: PAS_3; pfam08447 231023001759 putative active site [active] 231023001760 heme pocket [chemical binding]; other site 231023001761 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023001762 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 231023001763 putative active site [active] 231023001764 heme pocket [chemical binding]; other site 231023001765 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023001766 dimer interface [polypeptide binding]; other site 231023001767 phosphorylation site [posttranslational modification] 231023001768 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023001769 ATP binding site [chemical binding]; other site 231023001770 Mg2+ binding site [ion binding]; other site 231023001771 G-X-G motif; other site 231023001772 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023001773 Response regulator receiver domain; Region: Response_reg; pfam00072 231023001774 intermolecular recognition site; other site 231023001775 active site 231023001776 dimerization interface [polypeptide binding]; other site 231023001777 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 231023001778 Predicted ATPase [General function prediction only]; Region: COG1485 231023001779 Walker A motif; other site 231023001780 ATP binding site [chemical binding]; other site 231023001781 Walker B motif; other site 231023001782 arginine finger; other site 231023001783 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 231023001784 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 231023001785 acyl-activating enzyme (AAE) consensus motif; other site 231023001786 putative AMP binding site [chemical binding]; other site 231023001787 putative active site [active] 231023001788 putative CoA binding site [chemical binding]; other site 231023001789 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023001790 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023001791 LysR substrate binding domain; Region: LysR_substrate; pfam03466 231023001792 dimerization interface [polypeptide binding]; other site 231023001793 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 231023001794 HPP family; Region: HPP; pfam04982 231023001795 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 231023001796 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 231023001797 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 231023001798 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023001799 ATP binding site [chemical binding]; other site 231023001800 Mg2+ binding site [ion binding]; other site 231023001801 G-X-G motif; other site 231023001802 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 231023001803 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023001804 active site 231023001805 phosphorylation site [posttranslational modification] 231023001806 intermolecular recognition site; other site 231023001807 dimerization interface [polypeptide binding]; other site 231023001808 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 231023001809 DNA binding site [nucleotide binding] 231023001810 Predicted membrane protein [Function unknown]; Region: COG3212 231023001811 Predicted membrane protein [Function unknown]; Region: COG3212 231023001812 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 231023001813 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 231023001814 active site 231023001815 Predicted Fe-S protein [General function prediction only]; Region: COG3313 231023001816 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 231023001817 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 231023001818 substrate binding site [chemical binding]; other site 231023001819 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 231023001820 substrate binding site [chemical binding]; other site 231023001821 ligand binding site [chemical binding]; other site 231023001822 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 231023001823 2-methylcitrate dehydratase; Region: prpD; TIGR02330 231023001824 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 231023001825 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 231023001826 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 231023001827 substrate binding site [chemical binding]; other site 231023001828 ligand binding site [chemical binding]; other site 231023001829 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 231023001830 substrate binding site [chemical binding]; other site 231023001831 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 231023001832 Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes...; Region: Ec2MCS_like; cd06108 231023001833 dimer interface [polypeptide binding]; other site 231023001834 active site 231023001835 citrylCoA binding site [chemical binding]; other site 231023001836 oxalacetate/citrate binding site [chemical binding]; other site 231023001837 coenzyme A binding site [chemical binding]; other site 231023001838 catalytic triad [active] 231023001839 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 231023001840 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 231023001841 tetramer interface [polypeptide binding]; other site 231023001842 active site 231023001843 Mg2+/Mn2+ binding site [ion binding]; other site 231023001844 Transcriptional regulators [Transcription]; Region: GntR; COG1802 231023001845 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023001846 DNA-binding site [nucleotide binding]; DNA binding site 231023001847 FCD domain; Region: FCD; pfam07729 231023001848 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 231023001849 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 231023001850 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 231023001851 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 231023001852 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 231023001853 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 231023001854 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 231023001855 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 231023001856 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 231023001857 Active Sites [active] 231023001858 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 231023001859 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023001860 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 231023001861 substrate binding site [chemical binding]; other site 231023001862 dimerization interface [polypeptide binding]; other site 231023001863 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 231023001864 Ligand Binding Site [chemical binding]; other site 231023001865 2-dehydropantoate 2-reductase; Provisional; Region: PRK06249 231023001866 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 231023001867 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 231023001868 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 231023001869 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 231023001870 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 231023001871 Coenzyme A binding pocket [chemical binding]; other site 231023001872 L,D-transpeptidase; Provisional; Region: PRK10260 231023001873 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 231023001874 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 231023001875 active site 231023001876 catalytic triad [active] 231023001877 oxyanion hole [active] 231023001878 switch loop; other site 231023001879 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 231023001880 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 231023001881 Walker A/P-loop; other site 231023001882 ATP binding site [chemical binding]; other site 231023001883 Q-loop/lid; other site 231023001884 ABC transporter signature motif; other site 231023001885 Walker B; other site 231023001886 D-loop; other site 231023001887 H-loop/switch region; other site 231023001888 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 231023001889 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 231023001890 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 231023001891 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 231023001892 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 231023001893 Predicted membrane protein [Function unknown]; Region: COG2259 231023001894 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023001895 substrate binding pocket [chemical binding]; other site 231023001896 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 231023001897 membrane-bound complex binding site; other site 231023001898 hinge residues; other site 231023001899 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 231023001900 N-acetyl-D-glucosamine binding site [chemical binding]; other site 231023001901 catalytic residue [active] 231023001902 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 231023001903 active site 231023001904 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023001905 dimerization interface [polypeptide binding]; other site 231023001906 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 231023001907 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 231023001908 dimer interface [polypeptide binding]; other site 231023001909 putative CheW interface [polypeptide binding]; other site 231023001910 Terminase small subunit; Region: Terminase_2; cl01513 231023001911 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 231023001912 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 231023001913 active site 231023001914 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 231023001915 active site 2 [active] 231023001916 active site 1 [active] 231023001917 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 231023001918 hypothetical protein; Provisional; Region: PRK10279 231023001919 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 231023001920 nucleophile elbow; other site 231023001921 periplasmic folding chaperone; Provisional; Region: PRK10788 231023001922 SurA N-terminal domain; Region: SurA_N_3; pfam13624 231023001923 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 231023001924 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 231023001925 IHF dimer interface [polypeptide binding]; other site 231023001926 IHF - DNA interface [nucleotide binding]; other site 231023001927 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 231023001928 Found in ATP-dependent protease La (LON); Region: LON; smart00464 231023001929 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023001930 Walker A motif; other site 231023001931 ATP binding site [chemical binding]; other site 231023001932 Walker B motif; other site 231023001933 arginine finger; other site 231023001934 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 231023001935 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 231023001936 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 231023001937 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023001938 Walker A motif; other site 231023001939 ATP binding site [chemical binding]; other site 231023001940 Walker B motif; other site 231023001941 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 231023001942 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 231023001943 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 231023001944 oligomer interface [polypeptide binding]; other site 231023001945 active site residues [active] 231023001946 trigger factor; Provisional; Region: tig; PRK01490 231023001947 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 231023001948 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 231023001949 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 231023001950 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 231023001951 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 231023001952 homodimer interface [polypeptide binding]; other site 231023001953 NADP binding site [chemical binding]; other site 231023001954 substrate binding site [chemical binding]; other site 231023001955 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 231023001956 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 231023001957 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 231023001958 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023001959 dimer interface [polypeptide binding]; other site 231023001960 conserved gate region; other site 231023001961 putative PBP binding loops; other site 231023001962 ABC-ATPase subunit interface; other site 231023001963 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 231023001964 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023001965 dimer interface [polypeptide binding]; other site 231023001966 conserved gate region; other site 231023001967 putative PBP binding loops; other site 231023001968 ABC-ATPase subunit interface; other site 231023001969 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 231023001970 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 231023001971 Walker A/P-loop; other site 231023001972 ATP binding site [chemical binding]; other site 231023001973 Q-loop/lid; other site 231023001974 ABC transporter signature motif; other site 231023001975 Walker B; other site 231023001976 D-loop; other site 231023001977 H-loop/switch region; other site 231023001978 TOBE domain; Region: TOBE_2; pfam08402 231023001979 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 231023001980 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 231023001981 Walker A/P-loop; other site 231023001982 ATP binding site [chemical binding]; other site 231023001983 Q-loop/lid; other site 231023001984 ABC transporter signature motif; other site 231023001985 Walker B; other site 231023001986 D-loop; other site 231023001987 H-loop/switch region; other site 231023001988 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 231023001989 GAF domain; Region: GAF; pfam01590 231023001990 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023001991 Walker A motif; other site 231023001992 ATP binding site [chemical binding]; other site 231023001993 Walker B motif; other site 231023001994 arginine finger; other site 231023001995 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 231023001996 PAS domain; Region: PAS_9; pfam13426 231023001997 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023001998 putative active site [active] 231023001999 heme pocket [chemical binding]; other site 231023002000 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 231023002001 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023002002 metal binding site [ion binding]; metal-binding site 231023002003 active site 231023002004 I-site; other site 231023002005 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 231023002006 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023002007 PAS fold; Region: PAS_3; pfam08447 231023002008 putative active site [active] 231023002009 heme pocket [chemical binding]; other site 231023002010 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 231023002011 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 231023002012 dimer interface [polypeptide binding]; other site 231023002013 putative CheW interface [polypeptide binding]; other site 231023002014 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 231023002015 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 231023002016 non-specific DNA binding site [nucleotide binding]; other site 231023002017 salt bridge; other site 231023002018 sequence-specific DNA binding site [nucleotide binding]; other site 231023002019 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 231023002020 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 231023002021 Transcriptional regulators [Transcription]; Region: FadR; COG2186 231023002022 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023002023 DNA-binding site [nucleotide binding]; DNA binding site 231023002024 FCD domain; Region: FCD; pfam07729 231023002025 Transcriptional regulators [Transcription]; Region: FadR; COG2186 231023002026 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023002027 DNA-binding site [nucleotide binding]; DNA binding site 231023002028 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 231023002029 Predicted membrane protein [Function unknown]; Region: COG4125 231023002030 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 231023002031 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 231023002032 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023002033 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023002034 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 231023002035 dimerization interface [polypeptide binding]; other site 231023002036 Cache domain; Region: Cache_1; pfam02743 231023002037 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023002038 dimerization interface [polypeptide binding]; other site 231023002039 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 231023002040 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 231023002041 dimer interface [polypeptide binding]; other site 231023002042 putative CheW interface [polypeptide binding]; other site 231023002043 Uncharacterized membrane protein [Function unknown]; Region: COG3949 231023002044 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 231023002045 homotrimer interaction site [polypeptide binding]; other site 231023002046 putative active site [active] 231023002047 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 231023002048 hydroxyglutarate oxidase; Provisional; Region: PRK11728 231023002049 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 231023002050 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 231023002051 non-specific DNA binding site [nucleotide binding]; other site 231023002052 salt bridge; other site 231023002053 sequence-specific DNA binding site [nucleotide binding]; other site 231023002054 Cupin domain; Region: Cupin_2; pfam07883 231023002055 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 231023002056 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 231023002057 outer membrane receptor FepA; Provisional; Region: PRK13524 231023002058 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 231023002059 N-terminal plug; other site 231023002060 ligand-binding site [chemical binding]; other site 231023002061 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 231023002062 Major Facilitator Superfamily; Region: MFS_1; pfam07690 231023002063 putative substrate translocation pore; other site 231023002064 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 231023002065 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 231023002066 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 231023002067 threonine and homoserine efflux system; Provisional; Region: PRK10532 231023002068 EamA-like transporter family; Region: EamA; pfam00892 231023002069 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 231023002070 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 231023002071 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 231023002072 active site 231023002073 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 231023002074 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 231023002075 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 231023002076 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 231023002077 conserved cys residue [active] 231023002078 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023002079 Isochorismatase family; Region: Isochorismatase; pfam00857 231023002080 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 231023002081 catalytic triad [active] 231023002082 conserved cis-peptide bond; other site 231023002083 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 231023002084 non-specific DNA binding site [nucleotide binding]; other site 231023002085 salt bridge; other site 231023002086 sequence-specific DNA binding site [nucleotide binding]; other site 231023002087 Cupin domain; Region: Cupin_2; pfam07883 231023002088 EamA-like transporter family; Region: EamA; pfam00892 231023002089 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 231023002090 EamA-like transporter family; Region: EamA; cl17759 231023002091 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 231023002092 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 231023002093 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 231023002094 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 231023002095 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 231023002096 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 231023002097 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 231023002098 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 231023002099 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 231023002100 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 231023002101 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 231023002102 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 231023002103 enoyl-CoA hydratase; Provisional; Region: PRK05862 231023002104 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 231023002105 substrate binding site [chemical binding]; other site 231023002106 oxyanion hole (OAH) forming residues; other site 231023002107 trimer interface [polypeptide binding]; other site 231023002108 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 231023002109 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 231023002110 FAD binding site [chemical binding]; other site 231023002111 homotetramer interface [polypeptide binding]; other site 231023002112 substrate binding pocket [chemical binding]; other site 231023002113 catalytic base [active] 231023002114 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 231023002115 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 231023002116 dimer interface [polypeptide binding]; other site 231023002117 active site 231023002118 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 231023002119 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 231023002120 NAD(P) binding site [chemical binding]; other site 231023002121 active site 231023002122 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 231023002123 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 231023002124 acyl-activating enzyme (AAE) consensus motif; other site 231023002125 AMP binding site [chemical binding]; other site 231023002126 active site 231023002127 CoA binding site [chemical binding]; other site 231023002128 Leucine rich repeat; Region: LRR_8; pfam13855 231023002129 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 231023002130 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 231023002131 SurA N-terminal domain; Region: SurA_N; pfam09312 231023002132 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023002133 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023002134 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 231023002135 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 231023002136 dimerization interface [polypeptide binding]; other site 231023002137 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 231023002138 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 231023002139 catalytic residue [active] 231023002140 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 231023002141 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 231023002142 motif II; other site 231023002143 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 231023002144 Domain of unknown function DUF20; Region: UPF0118; pfam01594 231023002145 putative protease; Provisional; Region: PRK15452 231023002146 Peptidase family U32; Region: Peptidase_U32; pfam01136 231023002147 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 231023002148 Protein of unknown function, DUF; Region: DUF411; cl01142 231023002149 Predicted membrane protein [Function unknown]; Region: COG1238 231023002150 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 231023002151 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 231023002152 DinB family; Region: DinB; cl17821 231023002153 DinB superfamily; Region: DinB_2; pfam12867 231023002154 Predicted ATPase [General function prediction only]; Region: COG1485 231023002155 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 231023002156 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 231023002157 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 231023002158 agmatinase; Region: agmatinase; TIGR01230 231023002159 oligomer interface [polypeptide binding]; other site 231023002160 putative active site [active] 231023002161 Mn binding site [ion binding]; other site 231023002162 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 231023002163 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 231023002164 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023002165 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023002166 LysR substrate binding domain; Region: LysR_substrate; pfam03466 231023002167 dimerization interface [polypeptide binding]; other site 231023002168 Secretin and TonB N terminus short domain; Region: STN; smart00965 231023002169 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 231023002170 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 231023002171 N-terminal plug; other site 231023002172 ligand-binding site [chemical binding]; other site 231023002173 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 231023002174 RNA polymerase sigma factor; Reviewed; Region: PRK12527 231023002175 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 231023002176 DNA binding residues [nucleotide binding] 231023002177 FecR protein; Region: FecR; pfam04773 231023002178 Water Stress and Hypersensitive response; Region: WHy; smart00769 231023002179 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 231023002180 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 231023002181 active site 231023002182 dinuclear metal binding site [ion binding]; other site 231023002183 dimerization interface [polypeptide binding]; other site 231023002184 universal stress protein UspE; Provisional; Region: PRK11175 231023002185 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 231023002186 Ligand Binding Site [chemical binding]; other site 231023002187 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 231023002188 Ligand Binding Site [chemical binding]; other site 231023002189 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 231023002190 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 231023002191 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 231023002192 catalytic loop [active] 231023002193 iron binding site [ion binding]; other site 231023002194 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 231023002195 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 231023002196 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 231023002197 [4Fe-4S] binding site [ion binding]; other site 231023002198 molybdopterin cofactor binding site; other site 231023002199 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 231023002200 molybdopterin cofactor binding site; other site 231023002201 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 231023002202 putative dimer interface [polypeptide binding]; other site 231023002203 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 231023002204 SLBB domain; Region: SLBB; pfam10531 231023002205 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 231023002206 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 231023002207 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 231023002208 putative dimer interface [polypeptide binding]; other site 231023002209 [2Fe-2S] cluster binding site [ion binding]; other site 231023002210 putative kissing complex interaction region; other site 231023002211 putative RNA binding sites [nucleotide binding]; other site 231023002212 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 231023002213 ProQ/FINO family; Region: ProQ; pfam04352 231023002214 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 231023002215 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 231023002216 non-specific DNA binding site [nucleotide binding]; other site 231023002217 salt bridge; other site 231023002218 sequence-specific DNA binding site [nucleotide binding]; other site 231023002219 Cupin domain; Region: Cupin_2; pfam07883 231023002220 putative aminotransferase; Validated; Region: PRK07480 231023002221 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 231023002222 inhibitor-cofactor binding pocket; inhibition site 231023002223 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023002224 catalytic residue [active] 231023002225 Peptidase C26; Region: Peptidase_C26; pfam07722 231023002226 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 231023002227 catalytic triad [active] 231023002228 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 231023002229 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 231023002230 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 231023002231 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 231023002232 non-specific DNA binding site [nucleotide binding]; other site 231023002233 salt bridge; other site 231023002234 sequence-specific DNA binding site [nucleotide binding]; other site 231023002235 Cupin domain; Region: Cupin_2; pfam07883 231023002236 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 231023002237 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023002238 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 231023002239 dimerization interface [polypeptide binding]; other site 231023002240 substrate binding pocket [chemical binding]; other site 231023002241 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 231023002242 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK06463 231023002243 putative NAD(P) binding site [chemical binding]; other site 231023002244 putative active site [active] 231023002245 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023002246 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 231023002247 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023002248 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 231023002249 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 231023002250 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 231023002251 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 231023002252 Chorismate mutase type II; Region: CM_2; smart00830 231023002253 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 231023002254 Transposase, Mutator family; Region: Transposase_mut; pfam00872 231023002255 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 231023002256 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 231023002257 FMN binding site [chemical binding]; other site 231023002258 active site 231023002259 catalytic residues [active] 231023002260 substrate binding site [chemical binding]; other site 231023002261 transaldolase-like protein; Provisional; Region: PTZ00411 231023002262 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 231023002263 active site 231023002264 dimer interface [polypeptide binding]; other site 231023002265 catalytic residue [active] 231023002266 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 231023002267 metal binding site [ion binding]; metal-binding site 231023002268 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 231023002269 putative active site [active] 231023002270 putative metal binding site [ion binding]; other site 231023002271 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 231023002272 anti sigma factor interaction site; other site 231023002273 regulatory phosphorylation site [posttranslational modification]; other site 231023002274 Response regulator receiver domain; Region: Response_reg; pfam00072 231023002275 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023002276 active site 231023002277 phosphorylation site [posttranslational modification] 231023002278 intermolecular recognition site; other site 231023002279 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 231023002280 dimerization interface [polypeptide binding]; other site 231023002281 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 231023002282 PilZ domain; Region: PilZ; pfam07238 231023002283 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 231023002284 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 231023002285 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 231023002286 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 231023002287 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 231023002288 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 231023002289 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 231023002290 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 231023002291 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023002292 active site 231023002293 phosphorylation site [posttranslational modification] 231023002294 intermolecular recognition site; other site 231023002295 dimerization interface [polypeptide binding]; other site 231023002296 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 231023002297 DNA binding site [nucleotide binding] 231023002298 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 231023002299 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023002300 dimerization interface [polypeptide binding]; other site 231023002301 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023002302 dimer interface [polypeptide binding]; other site 231023002303 phosphorylation site [posttranslational modification] 231023002304 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023002305 ATP binding site [chemical binding]; other site 231023002306 Mg2+ binding site [ion binding]; other site 231023002307 G-X-G motif; other site 231023002308 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 231023002309 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 231023002310 FtsX-like permease family; Region: FtsX; pfam02687 231023002311 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 231023002312 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 231023002313 Walker A/P-loop; other site 231023002314 ATP binding site [chemical binding]; other site 231023002315 Q-loop/lid; other site 231023002316 ABC transporter signature motif; other site 231023002317 Walker B; other site 231023002318 D-loop; other site 231023002319 H-loop/switch region; other site 231023002320 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 231023002321 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 231023002322 FtsX-like permease family; Region: FtsX; pfam02687 231023002323 PilZ domain; Region: PilZ; pfam07238 231023002324 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 231023002325 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 231023002326 active site 231023002327 catalytic site [active] 231023002328 metal binding site [ion binding]; metal-binding site 231023002329 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 231023002330 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 231023002331 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 231023002332 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 231023002333 ApbE family; Region: ApbE; pfam02424 231023002334 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 231023002335 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 231023002336 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 231023002337 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 231023002338 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 231023002339 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 231023002340 ATP binding site [chemical binding]; other site 231023002341 putative Mg++ binding site [ion binding]; other site 231023002342 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 231023002343 nucleotide binding region [chemical binding]; other site 231023002344 ATP-binding site [chemical binding]; other site 231023002345 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 231023002346 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 231023002347 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 231023002348 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 231023002349 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 231023002350 ATP binding site [chemical binding]; other site 231023002351 putative Mg++ binding site [ion binding]; other site 231023002352 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 231023002353 nucleotide binding region [chemical binding]; other site 231023002354 ATP-binding site [chemical binding]; other site 231023002355 beta-hexosaminidase; Provisional; Region: PRK05337 231023002356 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 231023002357 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 231023002358 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 231023002359 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 231023002360 LexA repressor; Validated; Region: PRK00215 231023002361 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 231023002362 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 231023002363 Catalytic site [active] 231023002364 Cell division inhibitor SulA; Region: SulA; cl01880 231023002365 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 231023002366 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 231023002367 active site 231023002368 interdomain interaction site; other site 231023002369 putative metal-binding site [ion binding]; other site 231023002370 nucleotide binding site [chemical binding]; other site 231023002371 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 231023002372 domain I; other site 231023002373 DNA binding groove [nucleotide binding] 231023002374 phosphate binding site [ion binding]; other site 231023002375 domain II; other site 231023002376 domain III; other site 231023002377 nucleotide binding site [chemical binding]; other site 231023002378 catalytic site [active] 231023002379 domain IV; other site 231023002380 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 231023002381 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 231023002382 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 231023002383 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 231023002384 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 231023002385 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 231023002386 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 231023002387 dimer interface [polypeptide binding]; other site 231023002388 active site 231023002389 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 231023002390 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 231023002391 substrate binding site [chemical binding]; other site 231023002392 oxyanion hole (OAH) forming residues; other site 231023002393 trimer interface [polypeptide binding]; other site 231023002394 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 231023002395 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 231023002396 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 231023002397 Ligand Binding Site [chemical binding]; other site 231023002398 ABC transporter ATPase component; Reviewed; Region: PRK11147 231023002399 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 231023002400 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 231023002401 ABC transporter; Region: ABC_tran_2; pfam12848 231023002402 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 231023002403 lytic murein transglycosylase; Provisional; Region: PRK11619 231023002404 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 231023002405 N-acetyl-D-glucosamine binding site [chemical binding]; other site 231023002406 catalytic residue [active] 231023002407 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 231023002408 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 231023002409 MOSC domain; Region: MOSC; pfam03473 231023002410 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 231023002411 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 231023002412 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023002413 active site 231023002414 phosphorylation site [posttranslational modification] 231023002415 intermolecular recognition site; other site 231023002416 dimerization interface [polypeptide binding]; other site 231023002417 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 231023002418 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 231023002419 Histidine kinase; Region: HisKA_3; pfam07730 231023002420 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023002421 ATP binding site [chemical binding]; other site 231023002422 Mg2+ binding site [ion binding]; other site 231023002423 G-X-G motif; other site 231023002424 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 231023002425 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023002426 active site 231023002427 phosphorylation site [posttranslational modification] 231023002428 intermolecular recognition site; other site 231023002429 dimerization interface [polypeptide binding]; other site 231023002430 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 231023002431 DNA binding residues [nucleotide binding] 231023002432 dimerization interface [polypeptide binding]; other site 231023002433 lipid kinase; Reviewed; Region: PRK13054 231023002434 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 231023002435 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 231023002436 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 231023002437 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 231023002438 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 231023002439 dimer interface [polypeptide binding]; other site 231023002440 putative functional site; other site 231023002441 putative MPT binding site; other site 231023002442 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 231023002443 MPT binding site; other site 231023002444 trimer interface [polypeptide binding]; other site 231023002445 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 231023002446 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 231023002447 dimerization interface [polypeptide binding]; other site 231023002448 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 231023002449 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 231023002450 dimer interface [polypeptide binding]; other site 231023002451 putative CheW interface [polypeptide binding]; other site 231023002452 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 231023002453 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 231023002454 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023002455 Walker A/P-loop; other site 231023002456 ATP binding site [chemical binding]; other site 231023002457 Q-loop/lid; other site 231023002458 ABC transporter signature motif; other site 231023002459 Walker B; other site 231023002460 D-loop; other site 231023002461 H-loop/switch region; other site 231023002462 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 231023002463 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 231023002464 ligand binding site [chemical binding]; other site 231023002465 NAD binding site [chemical binding]; other site 231023002466 catalytic site [active] 231023002467 homodimer interface [polypeptide binding]; other site 231023002468 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 231023002469 CPxP motif; other site 231023002470 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 231023002471 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 231023002472 aconitate hydratase; Validated; Region: PRK09277 231023002473 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 231023002474 substrate binding site [chemical binding]; other site 231023002475 ligand binding site [chemical binding]; other site 231023002476 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 231023002477 substrate binding site [chemical binding]; other site 231023002478 PAS fold; Region: PAS_3; pfam08447 231023002479 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023002480 putative active site [active] 231023002481 heme pocket [chemical binding]; other site 231023002482 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 231023002483 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 231023002484 dimer interface [polypeptide binding]; other site 231023002485 putative CheW interface [polypeptide binding]; other site 231023002486 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 231023002487 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 231023002488 active site 231023002489 Peptidase M15; Region: Peptidase_M15_3; pfam08291 231023002490 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 231023002491 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 231023002492 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 231023002493 Predicted membrane protein [Function unknown]; Region: COG5393 231023002494 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 231023002495 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 231023002496 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 231023002497 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023002498 active site 231023002499 phosphorylation site [posttranslational modification] 231023002500 intermolecular recognition site; other site 231023002501 dimerization interface [polypeptide binding]; other site 231023002502 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 231023002503 DNA binding residues [nucleotide binding] 231023002504 dimerization interface [polypeptide binding]; other site 231023002505 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 231023002506 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023002507 substrate binding pocket [chemical binding]; other site 231023002508 membrane-bound complex binding site; other site 231023002509 hinge residues; other site 231023002510 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023002511 substrate binding pocket [chemical binding]; other site 231023002512 membrane-bound complex binding site; other site 231023002513 hinge residues; other site 231023002514 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023002515 putative active site [active] 231023002516 heme pocket [chemical binding]; other site 231023002517 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023002518 dimer interface [polypeptide binding]; other site 231023002519 phosphorylation site [posttranslational modification] 231023002520 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023002521 ATP binding site [chemical binding]; other site 231023002522 Mg2+ binding site [ion binding]; other site 231023002523 G-X-G motif; other site 231023002524 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023002525 active site 231023002526 phosphorylation site [posttranslational modification] 231023002527 intermolecular recognition site; other site 231023002528 dimerization interface [polypeptide binding]; other site 231023002529 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 231023002530 putative binding surface; other site 231023002531 active site 231023002532 hypothetical protein; Provisional; Region: PRK11702 231023002533 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 231023002534 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023002535 PAS domain; Region: PAS_9; pfam13426 231023002536 putative active site [active] 231023002537 heme pocket [chemical binding]; other site 231023002538 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023002539 heme pocket [chemical binding]; other site 231023002540 putative active site [active] 231023002541 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 231023002542 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023002543 metal binding site [ion binding]; metal-binding site 231023002544 active site 231023002545 I-site; other site 231023002546 Herpesvirus UL14-like protein; Region: Herpes_UL14; cl17291 231023002547 CHASE domain; Region: CHASE; pfam03924 231023002548 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 231023002549 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 231023002550 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 231023002551 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 231023002552 S-adenosylmethionine binding site [chemical binding]; other site 231023002553 Ribosome modulation factor; Region: RMF; pfam04957 231023002554 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 231023002555 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 231023002556 quinone interaction residues [chemical binding]; other site 231023002557 active site 231023002558 catalytic residues [active] 231023002559 FMN binding site [chemical binding]; other site 231023002560 substrate binding site [chemical binding]; other site 231023002561 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 231023002562 NMT1-like family; Region: NMT1_2; pfam13379 231023002563 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 231023002564 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023002565 active site 231023002566 phosphorylation site [posttranslational modification] 231023002567 intermolecular recognition site; other site 231023002568 dimerization interface [polypeptide binding]; other site 231023002569 ANTAR domain; Region: ANTAR; pfam03861 231023002570 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 231023002571 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 231023002572 putative substrate translocation pore; other site 231023002573 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 231023002574 active site 231023002575 Catalytic domain of Protein Kinases; Region: PKc; cd00180 231023002576 active site 231023002577 ATP binding site [chemical binding]; other site 231023002578 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 231023002579 substrate binding site [chemical binding]; other site 231023002580 activation loop (A-loop); other site 231023002581 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 231023002582 active site 231023002583 SAM binding site [chemical binding]; other site 231023002584 homodimer interface [polypeptide binding]; other site 231023002585 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 231023002586 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 231023002587 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 231023002588 ligand binding site [chemical binding]; other site 231023002589 RNA polymerase sigma factor SigX; Reviewed; Region: PRK09640 231023002590 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 231023002591 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 231023002592 DNA binding residues [nucleotide binding] 231023002593 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 231023002594 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 231023002595 Cl binding site [ion binding]; other site 231023002596 oligomer interface [polypeptide binding]; other site 231023002597 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 231023002598 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 231023002599 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 231023002600 phosphoenolpyruvate synthase; Validated; Region: PRK06464 231023002601 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 231023002602 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 231023002603 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 231023002604 PEP synthetase regulatory protein; Provisional; Region: PRK05339 231023002605 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 231023002606 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 231023002607 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023002608 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 231023002609 dimerization interface [polypeptide binding]; other site 231023002610 diaminopimelate decarboxylase; Provisional; Region: PRK11165 231023002611 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 231023002612 active site 231023002613 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 231023002614 substrate binding site [chemical binding]; other site 231023002615 catalytic residues [active] 231023002616 dimer interface [polypeptide binding]; other site 231023002617 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 231023002618 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 231023002619 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 231023002620 DNA binding residues [nucleotide binding] 231023002621 fec operon regulator FecR; Reviewed; Region: PRK09774 231023002622 FecR protein; Region: FecR; pfam04773 231023002623 Secretin and TonB N terminus short domain; Region: STN; smart00965 231023002624 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 231023002625 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 231023002626 N-terminal plug; other site 231023002627 ligand-binding site [chemical binding]; other site 231023002628 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023002629 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023002630 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 231023002631 putative substrate binding pocket [chemical binding]; other site 231023002632 putative dimerization interface [polypeptide binding]; other site 231023002633 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 231023002634 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 231023002635 Coenzyme A binding pocket [chemical binding]; other site 231023002636 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 231023002637 Helix-turn-helix domain; Region: HTH_18; pfam12833 231023002638 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023002639 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 231023002640 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 231023002641 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 231023002642 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023002643 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 231023002644 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 231023002645 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 231023002646 HlyD family secretion protein; Region: HlyD_3; pfam13437 231023002647 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 231023002648 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 231023002649 putative substrate translocation pore; other site 231023002650 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 231023002651 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 231023002652 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023002653 DNA-binding site [nucleotide binding]; DNA binding site 231023002654 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 231023002655 multidrug efflux protein; Reviewed; Region: PRK09579 231023002656 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 231023002657 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 231023002658 HlyD family secretion protein; Region: HlyD_3; pfam13437 231023002659 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 231023002660 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 231023002661 DNA binding residues [nucleotide binding] 231023002662 dimer interface [polypeptide binding]; other site 231023002663 [2Fe-2S] cluster binding site [ion binding]; other site 231023002664 CsbD-like; Region: CsbD; pfam05532 231023002665 outer membrane porin, OprD family; Region: OprD; pfam03573 231023002666 H+/citrate symporter [Energy production and conversion]; Region: CitM; cl17620 231023002667 Citrate transporter; Region: CitMHS; pfam03600 231023002668 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 231023002669 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 231023002670 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 231023002671 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023002672 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023002673 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 231023002674 putative dimerization interface [polypeptide binding]; other site 231023002675 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 231023002676 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 231023002677 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 231023002678 motif II; other site 231023002679 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 231023002680 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 231023002681 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 231023002682 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 231023002683 dimer interface [polypeptide binding]; other site 231023002684 active site 231023002685 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 231023002686 active site 231023002687 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 231023002688 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 231023002689 putative active site [active] 231023002690 metal binding site [ion binding]; metal-binding site 231023002691 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 231023002692 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 231023002693 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 231023002694 active site 231023002695 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 231023002696 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 231023002697 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 231023002698 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 231023002699 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 231023002700 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023002701 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023002702 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 231023002703 dimerization interface [polypeptide binding]; other site 231023002704 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 231023002705 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 231023002706 Domain of unknown function (DUF202); Region: DUF202; pfam02656 231023002707 Domain of unknown function (DUF202); Region: DUF202; cl09954 231023002708 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 231023002709 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 231023002710 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023002711 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023002712 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 231023002713 putative dimerization interface [polypeptide binding]; other site 231023002714 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 231023002715 D-galactonate transporter; Region: 2A0114; TIGR00893 231023002716 putative substrate translocation pore; other site 231023002717 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 231023002718 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 231023002719 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 231023002720 active site 231023002721 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 231023002722 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 231023002723 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 231023002724 acyl-activating enzyme (AAE) consensus motif; other site 231023002725 acyl-activating enzyme (AAE) consensus motif; other site 231023002726 putative AMP binding site [chemical binding]; other site 231023002727 putative active site [active] 231023002728 putative CoA binding site [chemical binding]; other site 231023002729 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 231023002730 intersubunit interface [polypeptide binding]; other site 231023002731 active site 231023002732 Zn2+ binding site [ion binding]; other site 231023002733 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 231023002734 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 231023002735 inhibitor site; inhibition site 231023002736 active site 231023002737 dimer interface [polypeptide binding]; other site 231023002738 catalytic residue [active] 231023002739 benzoate transporter; Region: benE; TIGR00843 231023002740 Benzoate membrane transport protein; Region: BenE; pfam03594 231023002741 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 231023002742 MoxR-like ATPases [General function prediction only]; Region: COG0714 231023002743 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023002744 Walker A motif; other site 231023002745 ATP binding site [chemical binding]; other site 231023002746 Walker B motif; other site 231023002747 arginine finger; other site 231023002748 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 231023002749 Protein of unknown function DUF58; Region: DUF58; pfam01882 231023002750 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 231023002751 Mg-chelatase subunit ChlD [Coenzyme metabolism]; Region: ChlD; COG1240 231023002752 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 231023002753 metal ion-dependent adhesion site (MIDAS); other site 231023002754 von Willebrand factor type A domain; Region: VWA_2; pfam13519 231023002755 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 231023002756 Tetratricopeptide repeat; Region: TPR_16; pfam13432 231023002757 TPR motif; other site 231023002758 binding surface 231023002759 Oxygen tolerance; Region: BatD; pfam13584 231023002760 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 231023002761 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 231023002762 exonuclease subunit SbcD; Provisional; Region: PRK10966 231023002763 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 231023002764 active site 231023002765 metal binding site [ion binding]; metal-binding site 231023002766 DNA binding site [nucleotide binding] 231023002767 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 231023002768 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023002769 AAA domain; Region: AAA_23; pfam13476 231023002770 Walker A/P-loop; other site 231023002771 ATP binding site [chemical binding]; other site 231023002772 Q-loop/lid; other site 231023002773 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023002774 ABC transporter signature motif; other site 231023002775 Walker B; other site 231023002776 D-loop; other site 231023002777 H-loop/switch region; other site 231023002778 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 231023002779 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 231023002780 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 231023002781 putative N-terminal domain interface [polypeptide binding]; other site 231023002782 putative dimer interface [polypeptide binding]; other site 231023002783 putative substrate binding pocket (H-site) [chemical binding]; other site 231023002784 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 231023002785 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 231023002786 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 231023002787 aminopeptidase N; Provisional; Region: pepN; PRK14015 231023002788 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 231023002789 active site 231023002790 Zn binding site [ion binding]; other site 231023002791 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 231023002792 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 231023002793 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 231023002794 Rhomboid family; Region: Rhomboid; pfam01694 231023002795 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 231023002796 active site 231023002797 metal binding site [ion binding]; metal-binding site 231023002798 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 231023002799 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 231023002800 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 231023002801 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 231023002802 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 231023002803 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 231023002804 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 231023002805 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 231023002806 active site 231023002807 FMN binding site [chemical binding]; other site 231023002808 2,4-decadienoyl-CoA binding site; other site 231023002809 catalytic residue [active] 231023002810 4Fe-4S cluster binding site [ion binding]; other site 231023002811 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 231023002812 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 231023002813 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 231023002814 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 231023002815 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023002816 Predicted membrane protein [Function unknown]; Region: COG2259 231023002817 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 231023002818 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 231023002819 putative NAD(P) binding site [chemical binding]; other site 231023002820 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 231023002821 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 231023002822 NAD(P) binding site [chemical binding]; other site 231023002823 active site 231023002824 Agrobacterium tumefaciens protein Atu4866; Region: Atu4866; pfam11512 231023002825 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 231023002826 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023002827 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023002828 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023002829 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023002830 LysR substrate binding domain; Region: LysR_substrate; pfam03466 231023002831 dimerization interface [polypeptide binding]; other site 231023002832 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 231023002833 classical (c) SDRs; Region: SDR_c; cd05233 231023002834 NAD(P) binding site [chemical binding]; other site 231023002835 active site 231023002836 Uncharacterized conserved protein [Function unknown]; Region: COG1359 231023002837 short chain dehydrogenase; Provisional; Region: PRK06180 231023002838 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 231023002839 NADP binding site [chemical binding]; other site 231023002840 active site 231023002841 steroid binding site; other site 231023002842 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 231023002843 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 231023002844 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 231023002845 Fimbrial protein; Region: Fimbrial; pfam00419 231023002846 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 231023002847 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023002848 dimer interface [polypeptide binding]; other site 231023002849 phosphorylation site [posttranslational modification] 231023002850 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023002851 ATP binding site [chemical binding]; other site 231023002852 Mg2+ binding site [ion binding]; other site 231023002853 G-X-G motif; other site 231023002854 Response regulator receiver domain; Region: Response_reg; pfam00072 231023002855 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023002856 active site 231023002857 phosphorylation site [posttranslational modification] 231023002858 intermolecular recognition site; other site 231023002859 dimerization interface [polypeptide binding]; other site 231023002860 Response regulator receiver domain; Region: Response_reg; pfam00072 231023002861 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023002862 active site 231023002863 phosphorylation site [posttranslational modification] 231023002864 intermolecular recognition site; other site 231023002865 dimerization interface [polypeptide binding]; other site 231023002866 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 231023002867 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023002868 dimer interface [polypeptide binding]; other site 231023002869 phosphorylation site [posttranslational modification] 231023002870 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023002871 ATP binding site [chemical binding]; other site 231023002872 Mg2+ binding site [ion binding]; other site 231023002873 G-X-G motif; other site 231023002874 Response regulator receiver domain; Region: Response_reg; pfam00072 231023002875 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023002876 active site 231023002877 phosphorylation site [posttranslational modification] 231023002878 intermolecular recognition site; other site 231023002879 dimerization interface [polypeptide binding]; other site 231023002880 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 231023002881 putative binding surface; other site 231023002882 active site 231023002883 transcriptional regulator RcsB; Provisional; Region: PRK10840 231023002884 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023002885 active site 231023002886 phosphorylation site [posttranslational modification] 231023002887 intermolecular recognition site; other site 231023002888 dimerization interface [polypeptide binding]; other site 231023002889 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 231023002890 DNA binding residues [nucleotide binding] 231023002891 dimerization interface [polypeptide binding]; other site 231023002892 Fimbrial protein; Region: Fimbrial; pfam00419 231023002893 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 231023002894 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 231023002895 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 231023002896 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 231023002897 PapC N-terminal domain; Region: PapC_N; pfam13954 231023002898 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 231023002899 PapC C-terminal domain; Region: PapC_C; pfam13953 231023002900 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 231023002901 active site 231023002902 catalytic triad [active] 231023002903 Predicted amidohydrolase [General function prediction only]; Region: COG0388 231023002904 dimer interface [polypeptide binding]; other site 231023002905 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 231023002906 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 231023002907 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023002908 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 231023002909 oxidoreductase; Validated; Region: PRK05717 231023002910 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 231023002911 NAD(P) binding site [chemical binding]; other site 231023002912 active site 231023002913 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 231023002914 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 231023002915 homodimer interface [polypeptide binding]; other site 231023002916 substrate-cofactor binding pocket; other site 231023002917 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023002918 catalytic residue [active] 231023002919 amidophosphoribosyltransferase; Provisional; Region: PRK09246 231023002920 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 231023002921 active site 231023002922 tetramer interface [polypeptide binding]; other site 231023002923 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 231023002924 active site 231023002925 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 231023002926 Colicin V production protein; Region: Colicin_V; cl00567 231023002927 Sporulation related domain; Region: SPOR; pfam05036 231023002928 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 231023002929 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 231023002930 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 231023002931 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 231023002932 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 231023002933 active site 231023002934 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 231023002935 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 231023002936 dimerization interface 3.5A [polypeptide binding]; other site 231023002937 active site 231023002938 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 231023002939 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 231023002940 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK05671 231023002941 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 231023002942 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 231023002943 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 231023002944 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 231023002945 tartrate dehydrogenase; Region: TTC; TIGR02089 231023002946 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 231023002947 S-adenosylmethionine binding site [chemical binding]; other site 231023002948 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 231023002949 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 231023002950 substrate binding site [chemical binding]; other site 231023002951 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 231023002952 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 231023002953 substrate binding site [chemical binding]; other site 231023002954 ligand binding site [chemical binding]; other site 231023002955 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023002956 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023002957 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 231023002958 dimerization interface [polypeptide binding]; other site 231023002959 PAS fold; Region: PAS_3; pfam08447 231023002960 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023002961 putative active site [active] 231023002962 heme pocket [chemical binding]; other site 231023002963 PAS domain S-box; Region: sensory_box; TIGR00229 231023002964 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023002965 putative active site [active] 231023002966 PAS fold; Region: PAS_3; pfam08447 231023002967 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 231023002968 PAS domain S-box; Region: sensory_box; TIGR00229 231023002969 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023002970 putative active site [active] 231023002971 heme pocket [chemical binding]; other site 231023002972 PAS domain S-box; Region: sensory_box; TIGR00229 231023002973 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023002974 putative active site [active] 231023002975 heme pocket [chemical binding]; other site 231023002976 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 231023002977 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023002978 metal binding site [ion binding]; metal-binding site 231023002979 active site 231023002980 I-site; other site 231023002981 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 231023002982 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 231023002983 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 231023002984 putative dimer interface [polypeptide binding]; other site 231023002985 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 231023002986 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 231023002987 FMN binding site [chemical binding]; other site 231023002988 active site 231023002989 catalytic residues [active] 231023002990 substrate binding site [chemical binding]; other site 231023002991 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 231023002992 active site 231023002993 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 231023002994 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 231023002995 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 231023002996 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 231023002997 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 231023002998 active site 231023002999 HIGH motif; other site 231023003000 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 231023003001 active site 231023003002 KMSKS motif; other site 231023003003 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 231023003004 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 231023003005 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 231023003006 HlyD family secretion protein; Region: HlyD_3; pfam13437 231023003007 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 231023003008 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 231023003009 putative substrate translocation pore; other site 231023003010 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 231023003011 excinuclease ABC subunit B; Provisional; Region: PRK05298 231023003012 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 231023003013 ATP binding site [chemical binding]; other site 231023003014 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 231023003015 nucleotide binding region [chemical binding]; other site 231023003016 ATP-binding site [chemical binding]; other site 231023003017 Ultra-violet resistance protein B; Region: UvrB; pfam12344 231023003018 UvrB/uvrC motif; Region: UVR; pfam02151 231023003019 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 231023003020 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 231023003021 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023003022 homodimer interface [polypeptide binding]; other site 231023003023 catalytic residue [active] 231023003024 Cupin domain; Region: Cupin_2; pfam07883 231023003025 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 231023003026 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 231023003027 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 231023003028 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 231023003029 FeS/SAM binding site; other site 231023003030 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 231023003031 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 231023003032 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 231023003033 WHG domain; Region: WHG; pfam13305 231023003034 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 231023003035 active site 231023003036 DNA polymerase III subunit delta'; Validated; Region: PRK05707 231023003037 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023003038 Walker A motif; other site 231023003039 ATP binding site [chemical binding]; other site 231023003040 Walker B motif; other site 231023003041 arginine finger; other site 231023003042 thymidylate kinase; Validated; Region: tmk; PRK00698 231023003043 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 231023003044 TMP-binding site; other site 231023003045 ATP-binding site [chemical binding]; other site 231023003046 YceG-like family; Region: YceG; pfam02618 231023003047 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 231023003048 dimerization interface [polypeptide binding]; other site 231023003049 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 231023003050 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 231023003051 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023003052 catalytic residue [active] 231023003053 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 231023003054 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 231023003055 dimer interface [polypeptide binding]; other site 231023003056 active site 231023003057 acyl carrier protein; Provisional; Region: acpP; PRK00982 231023003058 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 231023003059 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 231023003060 NAD(P) binding site [chemical binding]; other site 231023003061 active site 231023003062 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 231023003063 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 231023003064 putative phosphate acyltransferase; Provisional; Region: PRK05331 231023003065 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 231023003066 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 231023003067 Maf-like protein; Region: Maf; pfam02545 231023003068 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 231023003069 active site 231023003070 dimer interface [polypeptide binding]; other site 231023003071 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 231023003072 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 231023003073 tandem repeat interface [polypeptide binding]; other site 231023003074 oligomer interface [polypeptide binding]; other site 231023003075 active site residues [active] 231023003076 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 231023003077 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 231023003078 motif II; other site 231023003079 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 231023003080 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 231023003081 RNA binding surface [nucleotide binding]; other site 231023003082 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 231023003083 active site 231023003084 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 231023003085 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 231023003086 homodimer interface [polypeptide binding]; other site 231023003087 oligonucleotide binding site [chemical binding]; other site 231023003088 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 231023003089 FAD binding domain; Region: FAD_binding_4; pfam01565 231023003090 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 231023003091 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 231023003092 Low molecular weight phosphatase family; Region: LMWPc; cd00115 231023003093 active site 231023003094 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 231023003095 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 231023003096 Ligand binding site; other site 231023003097 oligomer interface; other site 231023003098 Uncharacterized conserved protein [Function unknown]; Region: COG2835 231023003099 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 231023003100 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 231023003101 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 231023003102 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 231023003103 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 231023003104 Competence protein; Region: Competence; pfam03772 231023003105 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 231023003106 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 231023003107 inner membrane transport permease; Provisional; Region: PRK15066 231023003108 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 231023003109 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 231023003110 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023003111 Walker A/P-loop; other site 231023003112 ATP binding site [chemical binding]; other site 231023003113 Q-loop/lid; other site 231023003114 ABC transporter signature motif; other site 231023003115 Walker B; other site 231023003116 D-loop; other site 231023003117 H-loop/switch region; other site 231023003118 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 231023003119 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 231023003120 putative C-terminal domain interface [polypeptide binding]; other site 231023003121 putative GSH binding site (G-site) [chemical binding]; other site 231023003122 putative dimer interface [polypeptide binding]; other site 231023003123 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 231023003124 putative N-terminal domain interface [polypeptide binding]; other site 231023003125 putative dimer interface [polypeptide binding]; other site 231023003126 putative substrate binding pocket (H-site) [chemical binding]; other site 231023003127 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 231023003128 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 231023003129 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 231023003130 active site 231023003131 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 231023003132 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 231023003133 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 231023003134 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 231023003135 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 231023003136 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 231023003137 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 231023003138 Autotransporter beta-domain; Region: Autotransporter; pfam03797 231023003139 aspartate aminotransferase; Provisional; Region: PRK05764 231023003140 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 231023003141 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 231023003142 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 231023003143 PapC N-terminal domain; Region: PapC_N; pfam13954 231023003144 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 231023003145 PapC C-terminal domain; Region: PapC_C; pfam13953 231023003146 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 231023003147 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 231023003148 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 231023003149 GAF domain; Region: GAF_2; pfam13185 231023003150 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 231023003151 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023003152 Walker A motif; other site 231023003153 ATP binding site [chemical binding]; other site 231023003154 Walker B motif; other site 231023003155 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023003156 dimer interface [polypeptide binding]; other site 231023003157 phosphorylation site [posttranslational modification] 231023003158 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023003159 ATP binding site [chemical binding]; other site 231023003160 Mg2+ binding site [ion binding]; other site 231023003161 G-X-G motif; other site 231023003162 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 231023003163 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023003164 active site 231023003165 phosphorylation site [posttranslational modification] 231023003166 intermolecular recognition site; other site 231023003167 dimerization interface [polypeptide binding]; other site 231023003168 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 231023003169 catalytic residues [active] 231023003170 dimer interface [polypeptide binding]; other site 231023003171 methionine sulfoxide reductase B; Provisional; Region: PRK00222 231023003172 SelR domain; Region: SelR; pfam01641 231023003173 aminotransferase AlaT; Validated; Region: PRK09265 231023003174 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 231023003175 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023003176 homodimer interface [polypeptide binding]; other site 231023003177 catalytic residue [active] 231023003178 heat shock protein HtpX; Provisional; Region: PRK05457 231023003179 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 231023003180 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 231023003181 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 231023003182 putative active site [active] 231023003183 metal binding site [ion binding]; metal-binding site 231023003184 helicase 45; Provisional; Region: PTZ00424 231023003185 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 231023003186 ATP binding site [chemical binding]; other site 231023003187 Mg++ binding site [ion binding]; other site 231023003188 motif III; other site 231023003189 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 231023003190 nucleotide binding region [chemical binding]; other site 231023003191 ATP-binding site [chemical binding]; other site 231023003192 DbpA RNA binding domain; Region: DbpA; pfam03880 231023003193 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 231023003194 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 231023003195 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 231023003196 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023003197 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023003198 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 231023003199 dimerization interface [polypeptide binding]; other site 231023003200 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 231023003201 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023003202 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023003203 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 231023003204 putative effector binding pocket; other site 231023003205 dimerization interface [polypeptide binding]; other site 231023003206 Transcriptional regulators [Transcription]; Region: MarR; COG1846 231023003207 MarR family; Region: MarR; pfam01047 231023003208 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 231023003209 elongation factor P; Validated; Region: PRK00529 231023003210 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 231023003211 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 231023003212 RNA binding site [nucleotide binding]; other site 231023003213 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 231023003214 RNA binding site [nucleotide binding]; other site 231023003215 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 231023003216 conserved hypothetical protein, PP_1857 family; Region: efp_adjacent_2; TIGR03837 231023003217 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 231023003218 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023003219 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023003220 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 231023003221 putative effector binding pocket; other site 231023003222 dimerization interface [polypeptide binding]; other site 231023003223 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 231023003224 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 231023003225 NAD(P) binding site [chemical binding]; other site 231023003226 active site 231023003227 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023003228 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023003229 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_3; cd08436 231023003230 putative dimerization interface [polypeptide binding]; other site 231023003231 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 231023003232 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 231023003233 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 231023003234 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 231023003235 N-terminal plug; other site 231023003236 ligand-binding site [chemical binding]; other site 231023003237 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 231023003238 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 231023003239 substrate binding site [chemical binding]; other site 231023003240 oxyanion hole (OAH) forming residues; other site 231023003241 trimer interface [polypeptide binding]; other site 231023003242 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 231023003243 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 231023003244 putative acyl-acceptor binding pocket; other site 231023003245 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 231023003246 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 231023003247 oligomer interface [polypeptide binding]; other site 231023003248 metal binding site [ion binding]; metal-binding site 231023003249 metal binding site [ion binding]; metal-binding site 231023003250 putative Cl binding site [ion binding]; other site 231023003251 basic sphincter; other site 231023003252 hydrophobic gate; other site 231023003253 periplasmic entrance; other site 231023003254 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 231023003255 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 231023003256 catalytic triad [active] 231023003257 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 231023003258 Cytochrome c; Region: Cytochrom_C; pfam00034 231023003259 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 231023003260 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 231023003261 Sulfatase; Region: Sulfatase; pfam00884 231023003262 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 231023003263 ZIP Zinc transporter; Region: Zip; pfam02535 231023003264 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 231023003265 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 231023003266 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 231023003267 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 231023003268 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 231023003269 Cupin domain; Region: Cupin_2; cl17218 231023003270 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 231023003271 putative substrate translocation pore; other site 231023003272 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 231023003273 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 231023003274 Tetramer interface [polypeptide binding]; other site 231023003275 active site 231023003276 FMN-binding site [chemical binding]; other site 231023003277 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 231023003278 HemK family putative methylases; Region: hemK_fam; TIGR00536 231023003279 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 231023003280 S-adenosylmethionine binding site [chemical binding]; other site 231023003281 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 231023003282 Isochorismatase family; Region: Isochorismatase; pfam00857 231023003283 catalytic triad [active] 231023003284 conserved cis-peptide bond; other site 231023003285 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 231023003286 Smr domain; Region: Smr; pfam01713 231023003287 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 231023003288 GTP cyclohydrolase I; Provisional; Region: PLN03044 231023003289 active site 231023003290 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 231023003291 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 231023003292 GST_N family, unknown subfamily 4; 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_4; cd03056 231023003293 putative C-terminal domain interface [polypeptide binding]; other site 231023003294 putative GSH binding site (G-site) [chemical binding]; other site 231023003295 putative dimer interface [polypeptide binding]; other site 231023003296 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 231023003297 N-terminal domain interface [polypeptide binding]; other site 231023003298 dimer interface [polypeptide binding]; other site 231023003299 substrate binding pocket (H-site) [chemical binding]; other site 231023003300 benzoate transporter; Region: benE; TIGR00843 231023003301 Benzoate membrane transport protein; Region: BenE; pfam03594 231023003302 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 231023003303 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 231023003304 dimer interface [polypeptide binding]; other site 231023003305 putative CheW interface [polypeptide binding]; other site 231023003306 short chain dehydrogenase; Provisional; Region: PRK06172 231023003307 classical (c) SDRs; Region: SDR_c; cd05233 231023003308 NAD(P) binding site [chemical binding]; other site 231023003309 active site 231023003310 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 231023003311 Prostaglandin dehydrogenases; Region: PGDH; cd05288 231023003312 NAD(P) binding site [chemical binding]; other site 231023003313 substrate binding site [chemical binding]; other site 231023003314 dimer interface [polypeptide binding]; other site 231023003315 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 231023003316 active site 231023003317 dimer interface [polypeptide binding]; other site 231023003318 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 231023003319 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 231023003320 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 231023003321 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 231023003322 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 231023003323 active site 231023003324 dimer interface [polypeptide binding]; other site 231023003325 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 231023003326 dimer interface [polypeptide binding]; other site 231023003327 active site 231023003328 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK12457 231023003329 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 231023003330 KpsF/GutQ family protein; Region: kpsF; TIGR00393 231023003331 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 231023003332 putative active site [active] 231023003333 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 231023003334 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 231023003335 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 231023003336 NAD(P) binding site [chemical binding]; other site 231023003337 homodimer interface [polypeptide binding]; other site 231023003338 substrate binding site [chemical binding]; other site 231023003339 active site 231023003340 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 231023003341 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 231023003342 Mg++ binding site [ion binding]; other site 231023003343 putative catalytic motif [active] 231023003344 putative substrate binding site [chemical binding]; other site 231023003345 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 231023003346 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 231023003347 putative NAD(P) binding site [chemical binding]; other site 231023003348 active site 231023003349 putative substrate binding site [chemical binding]; other site 231023003350 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 231023003351 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 231023003352 putative ADP-binding pocket [chemical binding]; other site 231023003353 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 231023003354 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 231023003355 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 231023003356 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 231023003357 NADP-binding site; other site 231023003358 homotetramer interface [polypeptide binding]; other site 231023003359 substrate binding site [chemical binding]; other site 231023003360 homodimer interface [polypeptide binding]; other site 231023003361 active site 231023003362 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 231023003363 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 231023003364 NADP-binding site; other site 231023003365 homotetramer interface [polypeptide binding]; other site 231023003366 substrate binding site [chemical binding]; other site 231023003367 homodimer interface [polypeptide binding]; other site 231023003368 active site 231023003369 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 231023003370 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 231023003371 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 231023003372 HlyD family secretion protein; Region: HlyD_3; pfam13437 231023003373 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 231023003374 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 231023003375 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 231023003376 Walker A/P-loop; other site 231023003377 ATP binding site [chemical binding]; other site 231023003378 Q-loop/lid; other site 231023003379 ABC transporter signature motif; other site 231023003380 Walker B; other site 231023003381 D-loop; other site 231023003382 H-loop/switch region; other site 231023003383 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 231023003384 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 231023003385 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 231023003386 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 231023003387 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 231023003388 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 231023003389 active site 231023003390 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 231023003391 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 231023003392 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 231023003393 Probable Catalytic site; other site 231023003394 metal-binding site 231023003395 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 231023003396 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 231023003397 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 231023003398 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 231023003399 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 231023003400 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 231023003401 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 231023003402 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 231023003403 NAD binding site [chemical binding]; other site 231023003404 homodimer interface [polypeptide binding]; other site 231023003405 active site 231023003406 substrate binding site [chemical binding]; other site 231023003407 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 231023003408 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 231023003409 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 231023003410 NAD binding site [chemical binding]; other site 231023003411 substrate binding site [chemical binding]; other site 231023003412 homodimer interface [polypeptide binding]; other site 231023003413 active site 231023003414 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 231023003415 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 231023003416 NADP binding site [chemical binding]; other site 231023003417 active site 231023003418 putative substrate binding site [chemical binding]; other site 231023003419 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 231023003420 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 231023003421 substrate binding site; other site 231023003422 tetramer interface; other site 231023003423 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 231023003424 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 231023003425 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 231023003426 active site 231023003427 metal binding site [ion binding]; metal-binding site 231023003428 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 231023003429 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 231023003430 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 231023003431 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 231023003432 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 231023003433 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 231023003434 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 231023003435 S-adenosylmethionine binding site [chemical binding]; other site 231023003436 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 231023003437 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 231023003438 active site 231023003439 ATP binding site [chemical binding]; other site 231023003440 Mnd1 family; Region: Mnd1; pfam03962 231023003441 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 231023003442 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 231023003443 Walker A/P-loop; other site 231023003444 ATP binding site [chemical binding]; other site 231023003445 Q-loop/lid; other site 231023003446 ABC transporter signature motif; other site 231023003447 Walker B; other site 231023003448 D-loop; other site 231023003449 H-loop/switch region; other site 231023003450 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 231023003451 putative carbohydrate binding site [chemical binding]; other site 231023003452 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 231023003453 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 231023003454 phosphomannomutase CpsG; Provisional; Region: PRK15414 231023003455 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 231023003456 active site 231023003457 substrate binding site [chemical binding]; other site 231023003458 metal binding site [ion binding]; metal-binding site 231023003459 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 231023003460 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 231023003461 Substrate binding site; other site 231023003462 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 231023003463 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 231023003464 Sulfatase; Region: Sulfatase; cl17466 231023003465 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 231023003466 Beta-Casp domain; Region: Beta-Casp; smart01027 231023003467 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 231023003468 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 231023003469 IHF dimer interface [polypeptide binding]; other site 231023003470 IHF - DNA interface [nucleotide binding]; other site 231023003471 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 231023003472 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 231023003473 RNA binding site [nucleotide binding]; other site 231023003474 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 231023003475 RNA binding site [nucleotide binding]; other site 231023003476 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 231023003477 RNA binding site [nucleotide binding]; other site 231023003478 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 231023003479 RNA binding site [nucleotide binding]; other site 231023003480 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 231023003481 RNA binding site [nucleotide binding]; other site 231023003482 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...; Region: S1_RPS1_repeat_ec6; cd05691 231023003483 RNA binding site [nucleotide binding]; other site 231023003484 cytidylate kinase; Provisional; Region: cmk; PRK00023 231023003485 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 231023003486 CMP-binding site; other site 231023003487 The sites determining sugar specificity; other site 231023003488 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 231023003489 prephenate dehydrogenase; Validated; Region: PRK08507 231023003490 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 231023003491 hinge; other site 231023003492 active site 231023003493 Chorismate mutase type II; Region: CM_2; cl00693 231023003494 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 231023003495 Prephenate dehydratase; Region: PDT; pfam00800 231023003496 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 231023003497 putative L-Phe binding site [chemical binding]; other site 231023003498 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 as...; Region: PSAT_like; cd00611 231023003499 homodimer interface [polypeptide binding]; other site 231023003500 substrate-cofactor binding pocket; other site 231023003501 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023003502 catalytic residue [active] 231023003503 DNA gyrase subunit A; Validated; Region: PRK05560 231023003504 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 231023003505 CAP-like domain; other site 231023003506 active site 231023003507 primary dimer interface [polypeptide binding]; other site 231023003508 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 231023003509 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 231023003510 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 231023003511 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 231023003512 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 231023003513 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 231023003514 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 231023003515 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 231023003516 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 231023003517 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 231023003518 S-adenosylmethionine binding site [chemical binding]; other site 231023003519 phosphoglycolate phosphatase; Provisional; Region: PRK13222 231023003520 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 231023003521 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 231023003522 motif II; other site 231023003523 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 231023003524 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 231023003525 NAD(P) binding site [chemical binding]; other site 231023003526 active site 231023003527 Pyrroloquinoline quinone (Coenzyme PQQ) biosynthesis protein C [Coenzyme metabolism]; Region: COG5424 231023003528 PAS domain S-box; Region: sensory_box; TIGR00229 231023003529 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023003530 putative active site [active] 231023003531 heme pocket [chemical binding]; other site 231023003532 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 231023003533 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023003534 metal binding site [ion binding]; metal-binding site 231023003535 active site 231023003536 I-site; other site 231023003537 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 231023003538 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 231023003539 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023003540 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 231023003541 Walker A/P-loop; other site 231023003542 ATP binding site [chemical binding]; other site 231023003543 Q-loop/lid; other site 231023003544 ABC transporter signature motif; other site 231023003545 Walker B; other site 231023003546 D-loop; other site 231023003547 H-loop/switch region; other site 231023003548 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 231023003549 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 231023003550 catalytic residues [active] 231023003551 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 231023003552 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 231023003553 active site residue [active] 231023003554 BolA-like protein; Region: BolA; pfam01722 231023003555 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 231023003556 fumarate hydratase; Provisional; Region: PRK12425 231023003557 Class II fumarases; Region: Fumarase_classII; cd01362 231023003558 active site 231023003559 tetramer interface [polypeptide binding]; other site 231023003560 EamA-like transporter family; Region: EamA; pfam00892 231023003561 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 231023003562 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 231023003563 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 231023003564 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 231023003565 Uncharacterized conserved protein [Function unknown]; Region: COG4121 231023003566 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 231023003567 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 231023003568 active site 231023003569 dimer interface [polypeptide binding]; other site 231023003570 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 231023003571 Ligand Binding Site [chemical binding]; other site 231023003572 Molecular Tunnel; other site 231023003573 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 231023003574 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 231023003575 Coenzyme A binding pocket [chemical binding]; other site 231023003576 ATP-grasp domain; Region: ATP-grasp_4; cl17255 231023003577 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 231023003578 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 231023003579 putative oligomer interface [polypeptide binding]; other site 231023003580 putative active site [active] 231023003581 metal binding site [ion binding]; metal-binding site 231023003582 hypothetical protein; Provisional; Region: PRK00304 231023003583 Global regulator protein family; Region: CsrA; pfam02599 231023003584 short chain dehydrogenase; Provisional; Region: PRK05650 231023003585 classical (c) SDRs; Region: SDR_c; cd05233 231023003586 NAD(P) binding site [chemical binding]; other site 231023003587 active site 231023003588 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 231023003589 putative fimbrial protein TcfA; Provisional; Region: PRK15308 231023003590 Baculoviral E56 protein, specific to ODV envelope; Region: Baculo_E56; pfam04639 231023003591 fimbrial outer membrane usher protein TcfC; Provisional; Region: PRK15310 231023003592 CS1 type fimbrial major subunit; Region: Fimbrial_CS1; cl04524 231023003593 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 231023003594 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 231023003595 Na binding site [ion binding]; other site 231023003596 Predicted membrane protein [Function unknown]; Region: COG3162 231023003597 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 231023003598 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 231023003599 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 231023003600 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 231023003601 VacJ like lipoprotein; Region: VacJ; cl01073 231023003602 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 231023003603 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 231023003604 active site 231023003605 nucleophile elbow; other site 231023003606 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 231023003607 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 231023003608 putative acyl-acceptor binding pocket; other site 231023003609 septum formation inhibitor; Reviewed; Region: minC; PRK00339 231023003610 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 231023003611 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 231023003612 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 231023003613 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 231023003614 Switch I; other site 231023003615 Switch II; other site 231023003616 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 231023003617 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 231023003618 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 231023003619 active site 231023003620 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 231023003621 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 231023003622 active site 231023003623 metal binding site [ion binding]; metal-binding site 231023003624 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 231023003625 Mechanosensitive ion channel; Region: MS_channel; pfam00924 231023003626 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023003627 transcriptional regulator protein; Region: phnR; TIGR03337 231023003628 DNA-binding site [nucleotide binding]; DNA binding site 231023003629 UTRA domain; Region: UTRA; pfam07702 231023003630 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 231023003631 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 231023003632 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 231023003633 Sulfatase; Region: Sulfatase; cl17466 231023003634 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023003635 dimer interface [polypeptide binding]; other site 231023003636 conserved gate region; other site 231023003637 putative PBP binding loops; other site 231023003638 ABC-ATPase subunit interface; other site 231023003639 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 231023003640 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023003641 dimer interface [polypeptide binding]; other site 231023003642 conserved gate region; other site 231023003643 putative PBP binding loops; other site 231023003644 ABC-ATPase subunit interface; other site 231023003645 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 231023003646 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023003647 Walker A/P-loop; other site 231023003648 ATP binding site [chemical binding]; other site 231023003649 Q-loop/lid; other site 231023003650 ABC transporter signature motif; other site 231023003651 Walker B; other site 231023003652 D-loop; other site 231023003653 H-loop/switch region; other site 231023003654 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 231023003655 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 231023003656 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 231023003657 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 231023003658 NAD(P) binding site [chemical binding]; other site 231023003659 carboxy-terminal protease; Provisional; Region: PRK11186 231023003660 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 231023003661 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 231023003662 protein binding site [polypeptide binding]; other site 231023003663 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 231023003664 Catalytic dyad [active] 231023003665 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 231023003666 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 231023003667 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 231023003668 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 231023003669 salt bridge; other site 231023003670 non-specific DNA binding site [nucleotide binding]; other site 231023003671 sequence-specific DNA binding site [nucleotide binding]; other site 231023003672 Uncharacterized conserved protein [Function unknown]; Region: COG3339 231023003673 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 231023003674 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 231023003675 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 231023003676 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 231023003677 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023003678 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 231023003679 dimerization interface [polypeptide binding]; other site 231023003680 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 231023003681 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023003682 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 231023003683 D-galactonate transporter; Region: 2A0114; TIGR00893 231023003684 putative substrate translocation pore; other site 231023003685 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 231023003686 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 231023003687 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 231023003688 classical (c) SDRs; Region: SDR_c; cd05233 231023003689 NAD(P) binding site [chemical binding]; other site 231023003690 active site 231023003691 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 231023003692 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 231023003693 putative ligand binding site [chemical binding]; other site 231023003694 NAD binding site [chemical binding]; other site 231023003695 catalytic site [active] 231023003696 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 while...; Region: Rieske_NirD; cd03529 231023003697 nitrite reductase subunit NirD; Provisional; Region: PRK14989 231023003698 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 231023003699 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 231023003700 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 231023003701 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 231023003702 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 231023003703 [4Fe-4S] binding site [ion binding]; other site 231023003704 molybdopterin cofactor binding site; other site 231023003705 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 231023003706 molybdopterin cofactor binding site; other site 231023003707 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 231023003708 Flavodoxin; Region: Flavodoxin_1; pfam00258 231023003709 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 231023003710 FAD binding pocket [chemical binding]; other site 231023003711 FAD binding motif [chemical binding]; other site 231023003712 catalytic residues [active] 231023003713 NAD binding pocket [chemical binding]; other site 231023003714 phosphate binding motif [ion binding]; other site 231023003715 beta-alpha-beta structure motif; other site 231023003716 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 231023003717 active site 231023003718 recombination associated protein; Reviewed; Region: rdgC; PRK00321 231023003719 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 231023003720 H+ Antiporter protein; Region: 2A0121; TIGR00900 231023003721 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 231023003722 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 231023003723 putative acyl-acceptor binding pocket; other site 231023003724 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 231023003725 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 231023003726 active site 231023003727 benzoate transport; Region: 2A0115; TIGR00895 231023003728 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 231023003729 putative substrate translocation pore; other site 231023003730 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 231023003731 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023003732 DNA-binding site [nucleotide binding]; DNA binding site 231023003733 UTRA domain; Region: UTRA; pfam07702 231023003734 Major Facilitator Superfamily; Region: MFS_1; pfam07690 231023003735 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 231023003736 putative substrate translocation pore; other site 231023003737 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 231023003738 Na binding site [ion binding]; other site 231023003739 PAS domain; Region: PAS; smart00091 231023003740 PAS fold; Region: PAS_7; pfam12860 231023003741 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 231023003742 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023003743 dimer interface [polypeptide binding]; other site 231023003744 phosphorylation site [posttranslational modification] 231023003745 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023003746 ATP binding site [chemical binding]; other site 231023003747 Mg2+ binding site [ion binding]; other site 231023003748 G-X-G motif; other site 231023003749 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 231023003750 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023003751 active site 231023003752 phosphorylation site [posttranslational modification] 231023003753 intermolecular recognition site; other site 231023003754 dimerization interface [polypeptide binding]; other site 231023003755 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 231023003756 RmuC family; Region: RmuC; pfam02646 231023003757 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 231023003758 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023003759 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023003760 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 231023003761 putative effector binding pocket; other site 231023003762 dimerization interface [polypeptide binding]; other site 231023003763 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 231023003764 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 231023003765 catalytic residues [active] 231023003766 dimer interface [polypeptide binding]; other site 231023003767 Transcriptional regulators [Transcription]; Region: MarR; COG1846 231023003768 MarR family; Region: MarR_2; pfam12802 231023003769 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 231023003770 cobalamin synthase; Reviewed; Region: cobS; PRK00235 231023003771 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 231023003772 catalytic core [active] 231023003773 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 231023003774 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 231023003775 putative dimer interface [polypeptide binding]; other site 231023003776 active site pocket [active] 231023003777 putative cataytic base [active] 231023003778 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 231023003779 homotrimer interface [polypeptide binding]; other site 231023003780 Walker A motif; other site 231023003781 GTP binding site [chemical binding]; other site 231023003782 cobyric acid synthase; Provisional; Region: PRK00784 231023003783 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 231023003784 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 231023003785 catalytic triad [active] 231023003786 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 231023003787 threonine-phosphate decarboxylase; Reviewed; Region: PRK05664 231023003788 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 231023003789 catalytic residue [active] 231023003790 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 231023003791 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 231023003792 putative FMN binding site [chemical binding]; other site 231023003793 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 231023003794 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 231023003795 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 231023003796 catalytic triad [active] 231023003797 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 231023003798 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 231023003799 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 231023003800 Walker A motif; other site 231023003801 homodimer interface [polypeptide binding]; other site 231023003802 ATP binding site [chemical binding]; other site 231023003803 hydroxycobalamin binding site [chemical binding]; other site 231023003804 Walker B motif; other site 231023003805 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 231023003806 NlpC/P60 family; Region: NLPC_P60; pfam00877 231023003807 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 231023003808 NlpC/P60 family; Region: NLPC_P60; pfam00877 231023003809 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 231023003810 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023003811 Walker A motif; other site 231023003812 ATP binding site [chemical binding]; other site 231023003813 Walker B motif; other site 231023003814 arginine finger; other site 231023003815 Domain of unknown function DUF20; Region: UPF0118; pfam01594 231023003816 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 231023003817 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 231023003818 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 231023003819 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 231023003820 dimerization interface [polypeptide binding]; other site 231023003821 putative ATP binding site [chemical binding]; other site 231023003822 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 231023003823 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 231023003824 active site 231023003825 substrate binding site [chemical binding]; other site 231023003826 cosubstrate binding site; other site 231023003827 catalytic site [active] 231023003828 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 231023003829 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 231023003830 Transposase; Region: DDE_Tnp_ISL3; pfam01610 231023003831 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 231023003832 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 231023003833 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 231023003834 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 231023003835 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 231023003836 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 231023003837 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 231023003838 homodimer interface [polypeptide binding]; other site 231023003839 metal binding site [ion binding]; metal-binding site 231023003840 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 231023003841 homodimer interface [polypeptide binding]; other site 231023003842 active site 231023003843 putative chemical substrate binding site [chemical binding]; other site 231023003844 metal binding site [ion binding]; metal-binding site 231023003845 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 231023003846 HD domain; Region: HD_4; pfam13328 231023003847 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 231023003848 synthetase active site [active] 231023003849 NTP binding site [chemical binding]; other site 231023003850 metal binding site [ion binding]; metal-binding site 231023003851 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 231023003852 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 231023003853 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 231023003854 TRAM domain; Region: TRAM; pfam01938 231023003855 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 231023003856 S-adenosylmethionine binding site [chemical binding]; other site 231023003857 cysteine synthase B; Region: cysM; TIGR01138 231023003858 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 231023003859 dimer interface [polypeptide binding]; other site 231023003860 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023003861 catalytic residue [active] 231023003862 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 231023003863 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023003864 dimerization interface [polypeptide binding]; other site 231023003865 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023003866 dimer interface [polypeptide binding]; other site 231023003867 phosphorylation site [posttranslational modification] 231023003868 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023003869 ATP binding site [chemical binding]; other site 231023003870 Mg2+ binding site [ion binding]; other site 231023003871 G-X-G motif; other site 231023003872 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 231023003873 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023003874 active site 231023003875 phosphorylation site [posttranslational modification] 231023003876 intermolecular recognition site; other site 231023003877 dimerization interface [polypeptide binding]; other site 231023003878 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 231023003879 DNA binding site [nucleotide binding] 231023003880 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 231023003881 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023003882 dimerization interface [polypeptide binding]; other site 231023003883 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023003884 dimer interface [polypeptide binding]; other site 231023003885 phosphorylation site [posttranslational modification] 231023003886 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023003887 ATP binding site [chemical binding]; other site 231023003888 Mg2+ binding site [ion binding]; other site 231023003889 G-X-G motif; other site 231023003890 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023003891 active site 231023003892 phosphorylation site [posttranslational modification] 231023003893 intermolecular recognition site; other site 231023003894 dimerization interface [polypeptide binding]; other site 231023003895 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 231023003896 putative binding surface; other site 231023003897 active site 231023003898 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 231023003899 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 231023003900 putative ligand binding site [chemical binding]; other site 231023003901 putative NAD binding site [chemical binding]; other site 231023003902 catalytic site [active] 231023003903 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 231023003904 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 231023003905 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 231023003906 catalytic residues [active] 231023003907 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 231023003908 ArsC family; Region: ArsC; pfam03960 231023003909 catalytic residues [active] 231023003910 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 231023003911 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 231023003912 Predicted membrane protein [Function unknown]; Region: COG3308 231023003913 3-methyladenine DNA glycosylase [DNA replication, recombination, and repair]; Region: Tag; COG2818 231023003914 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 231023003915 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 231023003916 Ligand Binding Site [chemical binding]; other site 231023003917 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 231023003918 hypothetical protein; Provisional; Region: PRK04860 231023003919 SprT homologues; Region: SprT; cl01182 231023003920 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 231023003921 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 231023003922 FAD binding pocket [chemical binding]; other site 231023003923 FAD binding motif [chemical binding]; other site 231023003924 phosphate binding motif [ion binding]; other site 231023003925 beta-alpha-beta structure motif; other site 231023003926 NAD binding pocket [chemical binding]; other site 231023003927 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 231023003928 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023003929 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 231023003930 putative dimerization interface [polypeptide binding]; other site 231023003931 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 231023003932 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 231023003933 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023003934 active site 231023003935 phosphorylation site [posttranslational modification] 231023003936 intermolecular recognition site; other site 231023003937 dimerization interface [polypeptide binding]; other site 231023003938 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 231023003939 DNA binding residues [nucleotide binding] 231023003940 dimerization interface [polypeptide binding]; other site 231023003941 Uncharacterized conserved protein [Function unknown]; Region: COG3148 231023003942 Domain of unknown function (DUF4146); Region: DUF4146; pfam13652 231023003943 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 231023003944 recombination regulator RecX; Reviewed; Region: recX; PRK00117 231023003945 recombinase A; Provisional; Region: recA; PRK09354 231023003946 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 231023003947 hexamer interface [polypeptide binding]; other site 231023003948 Walker A motif; other site 231023003949 ATP binding site [chemical binding]; other site 231023003950 Walker B motif; other site 231023003951 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 231023003952 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 231023003953 MutS domain I; Region: MutS_I; pfam01624 231023003954 MutS domain II; Region: MutS_II; pfam05188 231023003955 MutS domain III; Region: MutS_III; pfam05192 231023003956 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 231023003957 Walker A/P-loop; other site 231023003958 ATP binding site [chemical binding]; other site 231023003959 Q-loop/lid; other site 231023003960 ABC transporter signature motif; other site 231023003961 Walker B; other site 231023003962 D-loop; other site 231023003963 H-loop/switch region; other site 231023003964 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 231023003965 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 231023003966 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 231023003967 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 231023003968 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 231023003969 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 231023003970 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 231023003971 DNA binding residues [nucleotide binding] 231023003972 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 231023003973 Peptidase family M23; Region: Peptidase_M23; pfam01551 231023003974 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 231023003975 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 231023003976 S-adenosylmethionine binding site [chemical binding]; other site 231023003977 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 231023003978 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 231023003979 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 231023003980 Permutation of conserved domain; other site 231023003981 active site 231023003982 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 231023003983 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 231023003984 homotrimer interaction site [polypeptide binding]; other site 231023003985 zinc binding site [ion binding]; other site 231023003986 CDP-binding sites; other site 231023003987 S-formylglutathione hydrolase; Region: PLN02442 231023003988 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 231023003989 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 231023003990 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 231023003991 substrate binding site [chemical binding]; other site 231023003992 catalytic Zn binding site [ion binding]; other site 231023003993 NAD binding site [chemical binding]; other site 231023003994 structural Zn binding site [ion binding]; other site 231023003995 dimer interface [polypeptide binding]; other site 231023003996 LysR family transcriptional regulator; Provisional; Region: PRK14997 231023003997 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023003998 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like_1; cd08470 231023003999 putative effector binding pocket; other site 231023004000 putative dimerization interface [polypeptide binding]; other site 231023004001 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 231023004002 substrate binding site; other site 231023004003 dimer interface; other site 231023004004 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 231023004005 Septum formation initiator; Region: DivIC; cl17659 231023004006 enolase; Provisional; Region: eno; PRK00077 231023004007 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 231023004008 dimer interface [polypeptide binding]; other site 231023004009 metal binding site [ion binding]; metal-binding site 231023004010 substrate binding pocket [chemical binding]; other site 231023004011 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 231023004012 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 231023004013 CTP synthetase; Validated; Region: pyrG; PRK05380 231023004014 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 231023004015 Catalytic site [active] 231023004016 active site 231023004017 UTP binding site [chemical binding]; other site 231023004018 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 231023004019 active site 231023004020 putative oxyanion hole; other site 231023004021 catalytic triad [active] 231023004022 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 231023004023 Ligand Binding Site [chemical binding]; other site 231023004024 TilS substrate binding domain; Region: TilS; pfam09179 231023004025 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 231023004026 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 231023004027 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 231023004028 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 231023004029 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 231023004030 putative active site [active] 231023004031 putative PHP Thumb interface [polypeptide binding]; other site 231023004032 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 231023004033 generic binding surface II; other site 231023004034 generic binding surface I; other site 231023004035 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 231023004036 RNA/DNA hybrid binding site [nucleotide binding]; other site 231023004037 active site 231023004038 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 231023004039 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 231023004040 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 231023004041 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 231023004042 active site 231023004043 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 231023004044 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 231023004045 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 231023004046 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 231023004047 trimer interface [polypeptide binding]; other site 231023004048 active site 231023004049 UDP-GlcNAc binding site [chemical binding]; other site 231023004050 lipid binding site [chemical binding]; lipid-binding site 231023004051 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 231023004052 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 231023004053 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 231023004054 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 231023004055 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 231023004056 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 231023004057 Surface antigen; Region: Bac_surface_Ag; pfam01103 231023004058 zinc metallopeptidase RseP; Provisional; Region: PRK10779 231023004059 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 231023004060 active site 231023004061 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 231023004062 protein binding site [polypeptide binding]; other site 231023004063 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 231023004064 protein binding site [polypeptide binding]; other site 231023004065 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 231023004066 putative substrate binding region [chemical binding]; other site 231023004067 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 231023004068 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 231023004069 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 231023004070 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 231023004071 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 231023004072 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 231023004073 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 231023004074 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 231023004075 catalytic residue [active] 231023004076 putative FPP diphosphate binding site; other site 231023004077 putative FPP binding hydrophobic cleft; other site 231023004078 dimer interface [polypeptide binding]; other site 231023004079 putative IPP diphosphate binding site; other site 231023004080 ribosome recycling factor; Reviewed; Region: frr; PRK00083 231023004081 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 231023004082 hinge region; other site 231023004083 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 231023004084 putative nucleotide binding site [chemical binding]; other site 231023004085 uridine monophosphate binding site [chemical binding]; other site 231023004086 homohexameric interface [polypeptide binding]; other site 231023004087 elongation factor Ts; Provisional; Region: tsf; PRK09377 231023004088 UBA/TS-N domain; Region: UBA; pfam00627 231023004089 Elongation factor TS; Region: EF_TS; pfam00889 231023004090 Elongation factor TS; Region: EF_TS; pfam00889 231023004091 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 231023004092 rRNA interaction site [nucleotide binding]; other site 231023004093 S8 interaction site; other site 231023004094 putative laminin-1 binding site; other site 231023004095 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 231023004096 active site 231023004097 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 231023004098 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 231023004099 metal binding triad; other site 231023004100 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 231023004101 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 231023004102 Zn2+ binding site [ion binding]; other site 231023004103 Mg2+ binding site [ion binding]; other site 231023004104 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 231023004105 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 231023004106 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 231023004107 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 231023004108 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023004109 homodimer interface [polypeptide binding]; other site 231023004110 catalytic residue [active] 231023004111 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 231023004112 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 231023004113 ArsC family; Region: ArsC; pfam03960 231023004114 putative catalytic residues [active] 231023004115 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 231023004116 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 231023004117 putative trimer interface [polypeptide binding]; other site 231023004118 putative CoA binding site [chemical binding]; other site 231023004119 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 231023004120 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 231023004121 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 231023004122 catalytic residue [active] 231023004123 Fe-S metabolism associated domain; Region: SufE; cl00951 231023004124 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 231023004125 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 231023004126 putative ATP binding site [chemical binding]; other site 231023004127 putative substrate interface [chemical binding]; other site 231023004128 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 231023004129 PMP-22/EMP/MP20/Claudin family; Region: PMP22_Claudin; cl17758 231023004130 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 231023004131 NdvC_like proteins in this family are putative bacterial beta-(1,6)-glucosyltransferase; Region: CESA_NdvC_like; cd06435 231023004132 Ligand binding site; other site 231023004133 DXD motif; other site 231023004134 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 231023004135 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 231023004136 metal binding site [ion binding]; metal-binding site 231023004137 dimer interface [polypeptide binding]; other site 231023004138 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 231023004139 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 231023004140 S-adenosylmethionine binding site [chemical binding]; other site 231023004141 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 231023004142 DNA-binding site [nucleotide binding]; DNA binding site 231023004143 RNA-binding motif; other site 231023004144 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 231023004145 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 231023004146 putative acyl-acceptor binding pocket; other site 231023004147 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 231023004148 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 231023004149 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 231023004150 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 231023004151 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 231023004152 HlyD family secretion protein; Region: HlyD_3; pfam13437 231023004153 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 231023004154 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 231023004155 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 231023004156 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 231023004157 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 231023004158 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 231023004159 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 231023004160 tetramer interface [polypeptide binding]; other site 231023004161 active site 231023004162 Mg2+/Mn2+ binding site [ion binding]; other site 231023004163 Protein of unknown function DUF72; Region: DUF72; cl00777 231023004164 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 231023004165 Glycoprotease family; Region: Peptidase_M22; pfam00814 231023004166 adenylate kinase; Reviewed; Region: adk; PRK00279 231023004167 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 231023004168 AMP-binding site [chemical binding]; other site 231023004169 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 231023004170 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 231023004171 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 231023004172 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 231023004173 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 231023004174 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 231023004175 ligand binding site [chemical binding]; other site 231023004176 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 231023004177 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 231023004178 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 231023004179 conserved hypothetical protein; Region: QEGLA; TIGR02421 231023004180 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 231023004181 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 231023004182 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 231023004183 dimer interface [polypeptide binding]; other site 231023004184 putative anticodon binding site; other site 231023004185 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 231023004186 motif 1; other site 231023004187 active site 231023004188 motif 2; other site 231023004189 motif 3; other site 231023004190 peptide chain release factor 2; Provisional; Region: PRK08787 231023004191 This domain is found in peptide chain release factors; Region: PCRF; smart00937 231023004192 RF-1 domain; Region: RF-1; pfam00472 231023004193 Response regulator receiver domain; Region: Response_reg; pfam00072 231023004194 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023004195 active site 231023004196 phosphorylation site [posttranslational modification] 231023004197 intermolecular recognition site; other site 231023004198 dimerization interface [polypeptide binding]; other site 231023004199 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 231023004200 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023004201 metal binding site [ion binding]; metal-binding site 231023004202 active site 231023004203 I-site; other site 231023004204 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 231023004205 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023004206 active site 231023004207 phosphorylation site [posttranslational modification] 231023004208 intermolecular recognition site; other site 231023004209 CheB methylesterase; Region: CheB_methylest; pfam01339 231023004210 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 231023004211 putative binding surface; other site 231023004212 active site 231023004213 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 231023004214 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023004215 ATP binding site [chemical binding]; other site 231023004216 Mg2+ binding site [ion binding]; other site 231023004217 G-X-G motif; other site 231023004218 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 231023004219 Response regulator receiver domain; Region: Response_reg; pfam00072 231023004220 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023004221 active site 231023004222 phosphorylation site [posttranslational modification] 231023004223 intermolecular recognition site; other site 231023004224 dimerization interface [polypeptide binding]; other site 231023004225 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 231023004226 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 231023004227 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 231023004228 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 231023004229 S-adenosylmethionine binding site [chemical binding]; other site 231023004230 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 231023004231 TPR motif; other site 231023004232 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 231023004233 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 231023004234 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023004235 dimerization interface [polypeptide binding]; other site 231023004236 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 231023004237 dimer interface [polypeptide binding]; other site 231023004238 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 231023004239 putative CheW interface [polypeptide binding]; other site 231023004240 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 231023004241 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 231023004242 putative metal binding site [ion binding]; other site 231023004243 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 231023004244 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 231023004245 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 231023004246 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023004247 Walker A/P-loop; other site 231023004248 ATP binding site [chemical binding]; other site 231023004249 Q-loop/lid; other site 231023004250 ABC transporter signature motif; other site 231023004251 Walker B; other site 231023004252 D-loop; other site 231023004253 H-loop/switch region; other site 231023004254 TOBE domain; Region: TOBE_2; pfam08402 231023004255 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 231023004256 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023004257 putative PBP binding loops; other site 231023004258 dimer interface [polypeptide binding]; other site 231023004259 ABC-ATPase subunit interface; other site 231023004260 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 231023004261 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023004262 dimer interface [polypeptide binding]; other site 231023004263 conserved gate region; other site 231023004264 ABC-ATPase subunit interface; other site 231023004265 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 231023004266 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 231023004267 tetrameric interface [polypeptide binding]; other site 231023004268 NAD binding site [chemical binding]; other site 231023004269 catalytic residues [active] 231023004270 substrate binding site [chemical binding]; other site 231023004271 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 231023004272 HicB family; Region: HicB; pfam05534 231023004273 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 231023004274 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 231023004275 active site 231023004276 FMN binding site [chemical binding]; other site 231023004277 substrate binding site [chemical binding]; other site 231023004278 homotetramer interface [polypeptide binding]; other site 231023004279 catalytic residue [active] 231023004280 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 231023004281 DHH family; Region: DHH; pfam01368 231023004282 DHHA1 domain; Region: DHHA1; pfam02272 231023004283 YaeQ protein; Region: YaeQ; pfam07152 231023004284 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 231023004285 CoA-transferase family III; Region: CoA_transf_3; pfam02515 231023004286 conserved hypothetical protein; Region: TIGR02285 231023004287 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 231023004288 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 231023004289 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 231023004290 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023004291 catalytic residue [active] 231023004292 homoserine dehydrogenase; Provisional; Region: PRK06349 231023004293 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 231023004294 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 231023004295 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 231023004296 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 231023004297 dimerization domain [polypeptide binding]; other site 231023004298 dimer interface [polypeptide binding]; other site 231023004299 catalytic residues [active] 231023004300 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 231023004301 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 231023004302 active site 231023004303 Int/Topo IB signature motif; other site 231023004304 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 231023004305 TrkA-N domain; Region: TrkA_N; pfam02254 231023004306 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 231023004307 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 231023004308 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 231023004309 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 231023004310 RimM N-terminal domain; Region: RimM; pfam01782 231023004311 PRC-barrel domain; Region: PRC; pfam05239 231023004312 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 231023004313 signal recognition particle protein; Provisional; Region: PRK10867 231023004314 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 231023004315 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 231023004316 P loop; other site 231023004317 GTP binding site [chemical binding]; other site 231023004318 Signal peptide binding domain; Region: SRP_SPB; pfam02978 231023004319 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 231023004320 FOG: CBS domain [General function prediction only]; Region: COG0517 231023004321 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 231023004322 Transporter associated domain; Region: CorC_HlyC; smart01091 231023004323 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 231023004324 metabolite-proton symporter; Region: 2A0106; TIGR00883 231023004325 putative substrate translocation pore; other site 231023004326 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 231023004327 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 231023004328 ATP-grasp domain; Region: ATP-grasp; pfam02222 231023004329 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 231023004330 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 231023004331 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 231023004332 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 231023004333 trimer interface [polypeptide binding]; other site 231023004334 putative metal binding site [ion binding]; other site 231023004335 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 231023004336 putative active site [active] 231023004337 putative CoA binding site [chemical binding]; other site 231023004338 nudix motif; other site 231023004339 metal binding site [ion binding]; metal-binding site 231023004340 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 231023004341 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_4; cd04511 231023004342 nudix motif; other site 231023004343 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 231023004344 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 231023004345 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 231023004346 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 231023004347 haemagglutination activity domain; Region: Haemagg_act; pfam05860 231023004348 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 231023004349 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 231023004350 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 231023004351 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 231023004352 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 231023004353 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 231023004354 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 231023004355 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 231023004356 N-terminal plug; other site 231023004357 ligand-binding site [chemical binding]; other site 231023004358 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 231023004359 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 231023004360 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 231023004361 Trp docking motif [polypeptide binding]; other site 231023004362 putative active site [active] 231023004363 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 231023004364 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023004365 Walker A motif; other site 231023004366 ATP binding site [chemical binding]; other site 231023004367 Walker B motif; other site 231023004368 arginine finger; other site 231023004369 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 231023004370 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 231023004371 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 231023004372 active site 231023004373 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 231023004374 S-adenosylmethionine binding site [chemical binding]; other site 231023004375 Methyltransferase domain; Region: Methyltransf_31; pfam13847 231023004376 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 231023004377 S-adenosylmethionine binding site [chemical binding]; other site 231023004378 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 231023004379 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023004380 active site 231023004381 phosphorylation site [posttranslational modification] 231023004382 intermolecular recognition site; other site 231023004383 dimerization interface [polypeptide binding]; other site 231023004384 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 231023004385 DNA binding site [nucleotide binding] 231023004386 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 231023004387 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023004388 dimerization interface [polypeptide binding]; other site 231023004389 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023004390 dimer interface [polypeptide binding]; other site 231023004391 phosphorylation site [posttranslational modification] 231023004392 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023004393 ATP binding site [chemical binding]; other site 231023004394 Mg2+ binding site [ion binding]; other site 231023004395 G-X-G motif; other site 231023004396 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 231023004397 active site 231023004398 hydrophilic channel; other site 231023004399 dimerization interface [polypeptide binding]; other site 231023004400 catalytic residues [active] 231023004401 active site lid [active] 231023004402 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 231023004403 Recombination protein O N terminal; Region: RecO_N; pfam11967 231023004404 Recombination protein O C terminal; Region: RecO_C; pfam02565 231023004405 GTPase Era; Reviewed; Region: era; PRK00089 231023004406 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 231023004407 G1 box; other site 231023004408 GTP/Mg2+ binding site [chemical binding]; other site 231023004409 Switch I region; other site 231023004410 G2 box; other site 231023004411 Switch II region; other site 231023004412 G3 box; other site 231023004413 G4 box; other site 231023004414 G5 box; other site 231023004415 KH domain; Region: KH_2; pfam07650 231023004416 ribonuclease III; Reviewed; Region: rnc; PRK00102 231023004417 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 231023004418 dimerization interface [polypeptide binding]; other site 231023004419 active site 231023004420 metal binding site [ion binding]; metal-binding site 231023004421 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 231023004422 dsRNA binding site [nucleotide binding]; other site 231023004423 signal peptidase I; Provisional; Region: PRK10861 231023004424 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 231023004425 Catalytic site [active] 231023004426 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 231023004427 GTP-binding protein LepA; Provisional; Region: PRK05433 231023004428 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 231023004429 G1 box; other site 231023004430 putative GEF interaction site [polypeptide binding]; other site 231023004431 GTP/Mg2+ binding site [chemical binding]; other site 231023004432 Switch I region; other site 231023004433 G2 box; other site 231023004434 G3 box; other site 231023004435 Switch II region; other site 231023004436 G4 box; other site 231023004437 G5 box; other site 231023004438 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 231023004439 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 231023004440 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 231023004441 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 231023004442 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 231023004443 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 231023004444 protein binding site [polypeptide binding]; other site 231023004445 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 231023004446 protein binding site [polypeptide binding]; other site 231023004447 anti-sigma E factor; Provisional; Region: rseB; PRK09455 231023004448 MucB/RseB family; Region: MucB_RseB; pfam03888 231023004449 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 231023004450 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 231023004451 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 231023004452 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 231023004453 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 231023004454 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 231023004455 DNA binding residues [nucleotide binding] 231023004456 L-aspartate oxidase; Provisional; Region: PRK09077 231023004457 L-aspartate oxidase; Provisional; Region: PRK06175 231023004458 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 231023004459 Uncharacterized conserved protein [Function unknown]; Region: COG2938 231023004460 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 231023004461 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 231023004462 HDOD domain; Region: HDOD; pfam08668 231023004463 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 231023004464 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023004465 dimerization interface [polypeptide binding]; other site 231023004466 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023004467 dimer interface [polypeptide binding]; other site 231023004468 phosphorylation site [posttranslational modification] 231023004469 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023004470 ATP binding site [chemical binding]; other site 231023004471 Mg2+ binding site [ion binding]; other site 231023004472 G-X-G motif; other site 231023004473 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 231023004474 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023004475 active site 231023004476 phosphorylation site [posttranslational modification] 231023004477 intermolecular recognition site; other site 231023004478 dimerization interface [polypeptide binding]; other site 231023004479 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 231023004480 DNA binding site [nucleotide binding] 231023004481 outer membrane porin, OprD family; Region: OprD; pfam03573 231023004482 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 231023004483 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 231023004484 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 231023004485 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 231023004486 Putative ammonia monooxygenase; Region: AmoA; pfam05145 231023004487 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 231023004488 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 231023004489 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 231023004490 putative active site [active] 231023004491 putative metal binding site [ion binding]; other site 231023004492 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 231023004493 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 231023004494 ligand binding site [chemical binding]; other site 231023004495 active site 231023004496 UGI interface [polypeptide binding]; other site 231023004497 catalytic site [active] 231023004498 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 231023004499 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 231023004500 substrate binding site [chemical binding]; other site 231023004501 oxyanion hole (OAH) forming residues; other site 231023004502 trimer interface [polypeptide binding]; other site 231023004503 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 231023004504 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 231023004505 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023004506 metal binding site [ion binding]; metal-binding site 231023004507 active site 231023004508 I-site; other site 231023004509 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 231023004510 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 231023004511 RNA binding surface [nucleotide binding]; other site 231023004512 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 231023004513 active site 231023004514 uracil binding [chemical binding]; other site 231023004515 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 231023004516 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 231023004517 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 231023004518 Sulfate transporter family; Region: Sulfate_transp; pfam00916 231023004519 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 231023004520 Methyltransferase domain; Region: Methyltransf_31; pfam13847 231023004521 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 231023004522 S-adenosylmethionine binding site [chemical binding]; other site 231023004523 Repair protein; Region: Repair_PSII; cl01535 231023004524 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 231023004525 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 231023004526 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 231023004527 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023004528 dimer interface [polypeptide binding]; other site 231023004529 phosphorylation site [posttranslational modification] 231023004530 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023004531 ATP binding site [chemical binding]; other site 231023004532 Mg2+ binding site [ion binding]; other site 231023004533 G-X-G motif; other site 231023004534 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 231023004535 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023004536 active site 231023004537 phosphorylation site [posttranslational modification] 231023004538 intermolecular recognition site; other site 231023004539 dimerization interface [polypeptide binding]; other site 231023004540 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023004541 Walker A motif; other site 231023004542 ATP binding site [chemical binding]; other site 231023004543 Walker B motif; other site 231023004544 arginine finger; other site 231023004545 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 231023004546 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 231023004547 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 231023004548 putative substrate translocation pore; other site 231023004549 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 231023004550 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 231023004551 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 231023004552 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 231023004553 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 231023004554 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 231023004555 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 231023004556 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 231023004557 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023004558 hypothetical protein; Provisional; Region: PRK07524 231023004559 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 231023004560 PYR/PP interface [polypeptide binding]; other site 231023004561 dimer interface [polypeptide binding]; other site 231023004562 TPP binding site [chemical binding]; other site 231023004563 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 231023004564 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 231023004565 TPP-binding site [chemical binding]; other site 231023004566 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 231023004567 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023004568 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 231023004569 substrate binding pocket [chemical binding]; other site 231023004570 dimerization interface [polypeptide binding]; other site 231023004571 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 231023004572 NADH(P)-binding; Region: NAD_binding_10; pfam13460 231023004573 NAD binding site [chemical binding]; other site 231023004574 substrate binding site [chemical binding]; other site 231023004575 putative active site [active] 231023004576 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023004577 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023004578 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 231023004579 putative effector binding pocket; other site 231023004580 dimerization interface [polypeptide binding]; other site 231023004581 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 231023004582 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 231023004583 tetramer interface [polypeptide binding]; other site 231023004584 active site 231023004585 Mg2+/Mn2+ binding site [ion binding]; other site 231023004586 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 231023004587 putative substrate translocation pore; other site 231023004588 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 231023004589 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 231023004590 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 231023004591 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 231023004592 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 231023004593 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 231023004594 HlyD family secretion protein; Region: HlyD_3; pfam13437 231023004595 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 231023004596 Protein export membrane protein; Region: SecD_SecF; cl14618 231023004597 Protein export membrane protein; Region: SecD_SecF; cl14618 231023004598 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 231023004599 outer membrane porin, OprD family; Region: OprD; pfam03573 231023004600 Predicted membrane protein [Function unknown]; Region: COG4539 231023004601 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 231023004602 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 231023004603 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 231023004604 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 231023004605 tetramer interface [polypeptide binding]; other site 231023004606 active site 231023004607 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 231023004608 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 231023004609 putative substrate translocation pore; other site 231023004610 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 231023004611 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 231023004612 dimer interface [polypeptide binding]; other site 231023004613 active site 231023004614 benzoate transport; Region: 2A0115; TIGR00895 231023004615 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 231023004616 putative substrate translocation pore; other site 231023004617 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 231023004618 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 231023004619 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 231023004620 Bacterial transcriptional regulator; Region: IclR; pfam01614 231023004621 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 231023004622 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 231023004623 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 231023004624 Cache domain; Region: Cache_1; pfam02743 231023004625 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023004626 dimerization interface [polypeptide binding]; other site 231023004627 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 231023004628 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 231023004629 dimer interface [polypeptide binding]; other site 231023004630 putative CheW interface [polypeptide binding]; other site 231023004631 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 231023004632 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 231023004633 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 231023004634 Predicted deacetylase [General function prediction only]; Region: COG3233 231023004635 putative active site [active] 231023004636 putative Zn binding site [ion binding]; other site 231023004637 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 231023004638 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 231023004639 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 231023004640 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 231023004641 putative active site [active] 231023004642 putative substrate binding site [chemical binding]; other site 231023004643 putative cosubstrate binding site; other site 231023004644 catalytic site [active] 231023004645 exonuclease I; Provisional; Region: sbcB; PRK11779 231023004646 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 231023004647 active site 231023004648 catalytic site [active] 231023004649 substrate binding site [chemical binding]; other site 231023004650 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 231023004651 PilZ domain; Region: PilZ; pfam07238 231023004652 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 231023004653 pyruvate kinase; Provisional; Region: PRK05826 231023004654 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 231023004655 domain interfaces; other site 231023004656 active site 231023004657 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 231023004658 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 231023004659 ring oligomerisation interface [polypeptide binding]; other site 231023004660 ATP/Mg binding site [chemical binding]; other site 231023004661 stacking interactions; other site 231023004662 hinge regions; other site 231023004663 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 231023004664 oligomerisation interface [polypeptide binding]; other site 231023004665 mobile loop; other site 231023004666 roof hairpin; other site 231023004667 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 231023004668 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 231023004669 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 231023004670 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 231023004671 Protein of unknown function, DUF481; Region: DUF481; pfam04338 231023004672 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 231023004673 DNA binding site [nucleotide binding] 231023004674 active site 231023004675 muropeptide transporter; Validated; Region: ampG; cl17669 231023004676 muropeptide transporter; Validated; Region: ampG; cl17669 231023004677 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 231023004678 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 231023004679 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 231023004680 Mechanosensitive ion channel; Region: MS_channel; pfam00924 231023004681 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 231023004682 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 231023004683 2-dehydropantoate 2-reductase; Provisional; Region: PRK05708 231023004684 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 231023004685 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 231023004686 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023004687 dimerization interface [polypeptide binding]; other site 231023004688 PAS domain; Region: PAS; smart00091 231023004689 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 231023004690 putative active site [active] 231023004691 heme pocket [chemical binding]; other site 231023004692 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023004693 dimer interface [polypeptide binding]; other site 231023004694 phosphorylation site [posttranslational modification] 231023004695 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023004696 ATP binding site [chemical binding]; other site 231023004697 Mg2+ binding site [ion binding]; other site 231023004698 G-X-G motif; other site 231023004699 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 231023004700 hypothetical protein; Provisional; Region: PRK08999 231023004701 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 231023004702 active site 231023004703 8-oxo-dGMP binding site [chemical binding]; other site 231023004704 nudix motif; other site 231023004705 metal binding site [ion binding]; metal-binding site 231023004706 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 231023004707 thiamine phosphate binding site [chemical binding]; other site 231023004708 active site 231023004709 pyrophosphate binding site [ion binding]; other site 231023004710 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 231023004711 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 231023004712 putative C-terminal domain interface [polypeptide binding]; other site 231023004713 putative GSH binding site (G-site) [chemical binding]; other site 231023004714 putative dimer interface [polypeptide binding]; other site 231023004715 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 231023004716 putative substrate binding pocket (H-site) [chemical binding]; other site 231023004717 putative N-terminal domain interface [polypeptide binding]; other site 231023004718 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 231023004719 heterotetramer interface [polypeptide binding]; other site 231023004720 active site pocket [active] 231023004721 cleavage site 231023004722 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK13103 231023004723 DEAD/DEAH box helicase; Region: DEAD; pfam00270 231023004724 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 231023004725 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; cl17351 231023004726 nucleotide binding region [chemical binding]; other site 231023004727 ATP-binding site [chemical binding]; other site 231023004728 SEC-C motif; Region: SEC-C; pfam02810 231023004729 Protein of unknown function (DUF721); Region: DUF721; pfam05258 231023004730 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 231023004731 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 231023004732 cell division protein FtsZ; Validated; Region: PRK09330 231023004733 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 231023004734 nucleotide binding site [chemical binding]; other site 231023004735 SulA interaction site; other site 231023004736 cell division protein FtsA; Region: ftsA; TIGR01174 231023004737 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 231023004738 nucleotide binding site [chemical binding]; other site 231023004739 Cell division protein FtsA; Region: FtsA; pfam14450 231023004740 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 231023004741 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 231023004742 Cell division protein FtsQ; Region: FtsQ; pfam03799 231023004743 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 231023004744 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 231023004745 ATP-grasp domain; Region: ATP-grasp_4; cl17255 231023004746 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 231023004747 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 231023004748 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 231023004749 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 231023004750 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 231023004751 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 231023004752 active site 231023004753 homodimer interface [polypeptide binding]; other site 231023004754 cell division protein FtsW; Region: ftsW; TIGR02614 231023004755 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 231023004756 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 231023004757 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 231023004758 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 231023004759 Mg++ binding site [ion binding]; other site 231023004760 putative catalytic motif [active] 231023004761 putative substrate binding site [chemical binding]; other site 231023004762 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 231023004763 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 231023004764 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 231023004765 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 231023004766 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 231023004767 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 231023004768 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 231023004769 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 231023004770 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 231023004771 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 231023004772 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 231023004773 Cell division protein FtsL; Region: FtsL; pfam04999 231023004774 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 231023004775 MraW methylase family; Region: Methyltransf_5; cl17771 231023004776 cell division protein MraZ; Reviewed; Region: PRK00326 231023004777 MraZ protein; Region: MraZ; pfam02381 231023004778 MraZ protein; Region: MraZ; pfam02381 231023004779 Predicted methyltransferases [General function prediction only]; Region: COG0313 231023004780 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 231023004781 putative SAM binding site [chemical binding]; other site 231023004782 putative homodimer interface [polypeptide binding]; other site 231023004783 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 231023004784 putative ligand binding site [chemical binding]; other site 231023004785 hypothetical protein; Reviewed; Region: PRK12497 231023004786 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 231023004787 dimer interface [polypeptide binding]; other site 231023004788 active site 231023004789 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 231023004790 BON domain; Region: BON; pfam04972 231023004791 BON domain; Region: BON; pfam04972 231023004792 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 231023004793 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 231023004794 stringent starvation protein A; Provisional; Region: sspA; PRK09481 231023004795 C-terminal domain interface [polypeptide binding]; other site 231023004796 putative GSH binding site (G-site) [chemical binding]; other site 231023004797 dimer interface [polypeptide binding]; other site 231023004798 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 231023004799 dimer interface [polypeptide binding]; other site 231023004800 N-terminal domain interface [polypeptide binding]; other site 231023004801 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 231023004802 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 231023004803 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 231023004804 Qi binding site; other site 231023004805 intrachain domain interface; other site 231023004806 interchain domain interface [polypeptide binding]; other site 231023004807 heme bH binding site [chemical binding]; other site 231023004808 heme bL binding site [chemical binding]; other site 231023004809 Qo binding site; other site 231023004810 interchain domain interface [polypeptide binding]; other site 231023004811 intrachain domain interface; other site 231023004812 Qi binding site; other site 231023004813 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 231023004814 Qo binding site; other site 231023004815 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 231023004816 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 231023004817 [2Fe-2S] cluster binding site [ion binding]; other site 231023004818 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 231023004819 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 231023004820 23S rRNA interface [nucleotide binding]; other site 231023004821 L3 interface [polypeptide binding]; other site 231023004822 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 231023004823 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 231023004824 active site 231023004825 catalytic tetrad [active] 231023004826 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 231023004827 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 231023004828 conserved cys residue [active] 231023004829 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023004830 Predicted ATPase [General function prediction only]; Region: COG1485 231023004831 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 231023004832 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 231023004833 active site 231023004834 HIGH motif; other site 231023004835 dimer interface [polypeptide binding]; other site 231023004836 KMSKS motif; other site 231023004837 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 231023004838 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 231023004839 methionine gamma-lyase; Provisional; Region: PRK07503 231023004840 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 231023004841 homodimer interface [polypeptide binding]; other site 231023004842 substrate-cofactor binding pocket; other site 231023004843 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023004844 catalytic residue [active] 231023004845 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 231023004846 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 231023004847 putative DNA binding site [nucleotide binding]; other site 231023004848 putative Zn2+ binding site [ion binding]; other site 231023004849 AsnC family; Region: AsnC_trans_reg; pfam01037 231023004850 S-type Pyocin; Region: Pyocin_S; pfam06958 231023004851 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 231023004852 active site 231023004853 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 231023004854 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 231023004855 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 231023004856 CysD dimerization site [polypeptide binding]; other site 231023004857 G1 box; other site 231023004858 putative GEF interaction site [polypeptide binding]; other site 231023004859 GTP/Mg2+ binding site [chemical binding]; other site 231023004860 Switch I region; other site 231023004861 G2 box; other site 231023004862 G3 box; other site 231023004863 Switch II region; other site 231023004864 G4 box; other site 231023004865 G5 box; other site 231023004866 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 231023004867 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 231023004868 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 231023004869 ligand-binding site [chemical binding]; other site 231023004870 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 231023004871 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 231023004872 Active Sites [active] 231023004873 Uncharacterized conserved protein [Function unknown]; Region: COG0327 231023004874 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 231023004875 serine endoprotease; Provisional; Region: PRK10898 231023004876 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 231023004877 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 231023004878 protein binding site [polypeptide binding]; other site 231023004879 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 231023004880 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 231023004881 Walker A/P-loop; other site 231023004882 ATP binding site [chemical binding]; other site 231023004883 Q-loop/lid; other site 231023004884 ABC transporter signature motif; other site 231023004885 Walker B; other site 231023004886 D-loop; other site 231023004887 H-loop/switch region; other site 231023004888 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 231023004889 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023004890 dimer interface [polypeptide binding]; other site 231023004891 conserved gate region; other site 231023004892 putative PBP binding loops; other site 231023004893 ABC-ATPase subunit interface; other site 231023004894 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 231023004895 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023004896 conserved gate region; other site 231023004897 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023004898 dimer interface [polypeptide binding]; other site 231023004899 ABC-ATPase subunit interface; other site 231023004900 putative PBP binding loops; other site 231023004901 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023004902 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 231023004903 substrate binding pocket [chemical binding]; other site 231023004904 membrane-bound complex binding site; other site 231023004905 hinge residues; other site 231023004906 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 231023004907 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 231023004908 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 231023004909 ATP binding site [chemical binding]; other site 231023004910 Mg++ binding site [ion binding]; other site 231023004911 motif III; other site 231023004912 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 231023004913 nucleotide binding region [chemical binding]; other site 231023004914 ATP-binding site [chemical binding]; other site 231023004915 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 231023004916 MoaD interaction [polypeptide binding]; other site 231023004917 active site residues [active] 231023004918 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 231023004919 MoaE interaction surface [polypeptide binding]; other site 231023004920 MoeB interaction surface [polypeptide binding]; other site 231023004921 thiocarboxylated glycine; other site 231023004922 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 231023004923 trimer interface [polypeptide binding]; other site 231023004924 dimer interface [polypeptide binding]; other site 231023004925 putative active site [active] 231023004926 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 231023004927 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 231023004928 putative active site [active] 231023004929 PhoH-like protein; Region: PhoH; pfam02562 231023004930 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 231023004931 NodB motif; other site 231023004932 active site 231023004933 catalytic site [active] 231023004934 metal binding site [ion binding]; metal-binding site 231023004935 hypothetical protein; Validated; Region: PRK02101 231023004936 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 231023004937 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 231023004938 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 231023004939 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 231023004940 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 231023004941 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 231023004942 PilZ domain; Region: PilZ; pfam07238 231023004943 HlyD family secretion protein; Region: HlyD_3; pfam13437 231023004944 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 231023004945 Sel1-like repeats; Region: SEL1; smart00671 231023004946 Right handed beta helix region; Region: Beta_helix; pfam13229 231023004947 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 231023004948 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cd00244 231023004949 active site 231023004950 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 231023004951 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 231023004952 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 231023004953 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 231023004954 Substrate binding site; other site 231023004955 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 231023004956 short chain dehydrogenase; Provisional; Region: PRK05693 231023004957 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 231023004958 NADP binding site [chemical binding]; other site 231023004959 active site 231023004960 steroid binding site; other site 231023004961 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 231023004962 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 231023004963 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 231023004964 HlyD family secretion protein; Region: HlyD_3; pfam13437 231023004965 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 231023004966 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 231023004967 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023004968 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023004969 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 231023004970 putative substrate binding pocket [chemical binding]; other site 231023004971 putative dimerization interface [polypeptide binding]; other site 231023004972 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 231023004973 Ligand Binding Site [chemical binding]; other site 231023004974 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 231023004975 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 231023004976 HlyD family secretion protein; Region: HlyD_3; pfam13437 231023004977 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 231023004978 Fusaric acid resistance protein family; Region: FUSC; pfam04632 231023004979 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 231023004980 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 231023004981 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023004982 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023004983 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 231023004984 putative effector binding pocket; other site 231023004985 dimerization interface [polypeptide binding]; other site 231023004986 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 231023004987 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 231023004988 dimerization interface [polypeptide binding]; other site 231023004989 ligand binding site [chemical binding]; other site 231023004990 NADP binding site [chemical binding]; other site 231023004991 catalytic site [active] 231023004992 EamA-like transporter family; Region: EamA; pfam00892 231023004993 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023004994 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 231023004995 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023004996 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 231023004997 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 231023004998 N-terminal plug; other site 231023004999 ligand-binding site [chemical binding]; other site 231023005000 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 231023005001 FecR protein; Region: FecR; pfam04773 231023005002 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 231023005003 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 231023005004 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 231023005005 DNA binding residues [nucleotide binding] 231023005006 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 231023005007 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 231023005008 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 231023005009 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 231023005010 Protein of unknown function (DUF3649); Region: DUF3649; pfam12365 231023005011 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cl00250 231023005012 30S subunit binding site; other site 231023005013 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 231023005014 Predicted membrane protein [Function unknown]; Region: COG3223 231023005015 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 231023005016 YebG protein; Region: YebG; pfam07130 231023005017 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 231023005018 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 231023005019 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 231023005020 NAD binding site [chemical binding]; other site 231023005021 Phe binding site; other site 231023005022 Uncharacterized conserved protein [Function unknown]; Region: COG2912 231023005023 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 231023005024 maleylacetoacetate isomerase; Region: maiA; TIGR01262 231023005025 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 231023005026 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 231023005027 dimer interface [polypeptide binding]; other site 231023005028 N-terminal domain interface [polypeptide binding]; other site 231023005029 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 231023005030 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 231023005031 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 231023005032 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 231023005033 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 231023005034 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 231023005035 LrgB-like family; Region: LrgB; pfam04172 231023005036 LrgA family; Region: LrgA; pfam03788 231023005037 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023005038 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023005039 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 231023005040 putative dimerization interface [polypeptide binding]; other site 231023005041 flavodoxin; Provisional; Region: PRK05723 231023005042 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023005043 PAS domain; Region: PAS_9; pfam13426 231023005044 putative active site [active] 231023005045 heme pocket [chemical binding]; other site 231023005046 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 231023005047 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 231023005048 DNA binding residues [nucleotide binding] 231023005049 B12 binding domain; Region: B12-binding_2; pfam02607 231023005050 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 231023005051 dihydromonapterin reductase; Provisional; Region: PRK06483 231023005052 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 231023005053 NAD(P) binding site [chemical binding]; other site 231023005054 active site 231023005055 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 231023005056 HopJ type III effector protein; Region: HopJ; pfam08888 231023005057 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 231023005058 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 231023005059 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 231023005060 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 231023005061 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 231023005062 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 231023005063 acetyl-CoA acetyltransferase; Provisional; Region: PRK05656 231023005064 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 231023005065 dimer interface [polypeptide binding]; other site 231023005066 active site 231023005067 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 231023005068 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 231023005069 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 231023005070 P-loop, Walker A motif; other site 231023005071 Base recognition motif; other site 231023005072 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 231023005073 Protein of unknown function (DUF466); Region: DUF466; pfam04328 231023005074 carbon starvation protein A; Provisional; Region: PRK15015 231023005075 Carbon starvation protein CstA; Region: CstA; pfam02554 231023005076 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 231023005077 xanthine permease; Region: pbuX; TIGR03173 231023005078 DNA repair protein RadA; Provisional; Region: PRK11823 231023005079 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 231023005080 Walker A motif; other site 231023005081 ATP binding site [chemical binding]; other site 231023005082 Walker B motif; other site 231023005083 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 231023005084 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 231023005085 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 231023005086 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 231023005087 ferredoxin-NADP reductase; Provisional; Region: PRK10926 231023005088 FAD binding pocket [chemical binding]; other site 231023005089 FAD binding motif [chemical binding]; other site 231023005090 phosphate binding motif [ion binding]; other site 231023005091 beta-alpha-beta structure motif; other site 231023005092 NAD binding pocket [chemical binding]; other site 231023005093 Autoinducer binding domain; Region: Autoind_bind; pfam03472 231023005094 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 231023005095 DNA binding residues [nucleotide binding] 231023005096 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 231023005097 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 231023005098 S-adenosylmethionine binding site [chemical binding]; other site 231023005099 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 231023005100 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 231023005101 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 231023005102 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 231023005103 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 231023005104 H+ Antiporter protein; Region: 2A0121; TIGR00900 231023005105 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 231023005106 putative substrate translocation pore; other site 231023005107 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 231023005108 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 231023005109 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 231023005110 S-adenosylmethionine binding site [chemical binding]; other site 231023005111 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 231023005112 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 231023005113 heterodimer interface [polypeptide binding]; other site 231023005114 active site 231023005115 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 231023005116 heterodimer interface [polypeptide binding]; other site 231023005117 multimer interface [polypeptide binding]; other site 231023005118 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 231023005119 active site 231023005120 Predicted metalloprotease [General function prediction only]; Region: COG2321 231023005121 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 231023005122 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023005123 dimerization interface [polypeptide binding]; other site 231023005124 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 231023005125 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 231023005126 dimer interface [polypeptide binding]; other site 231023005127 putative CheW interface [polypeptide binding]; other site 231023005128 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 231023005129 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 231023005130 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023005131 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023005132 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 231023005133 dimerization interface [polypeptide binding]; other site 231023005134 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 231023005135 Uncharacterized conserved protein [Function unknown]; Region: COG1359 231023005136 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023005137 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023005138 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 231023005139 putative dimerization interface [polypeptide binding]; other site 231023005140 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 231023005141 putative metal binding site [ion binding]; other site 231023005142 putative homodimer interface [polypeptide binding]; other site 231023005143 putative homotetramer interface [polypeptide binding]; other site 231023005144 putative homodimer-homodimer interface [polypeptide binding]; other site 231023005145 putative allosteric switch controlling residues; other site 231023005146 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 231023005147 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 231023005148 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 231023005149 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 231023005150 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 231023005151 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 231023005152 tetrameric interface [polypeptide binding]; other site 231023005153 NAD binding site [chemical binding]; other site 231023005154 catalytic residues [active] 231023005155 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023005156 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023005157 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 231023005158 dimerization interface [polypeptide binding]; other site 231023005159 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 231023005160 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 231023005161 ligand binding site [chemical binding]; other site 231023005162 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 231023005163 HAMP domain; Region: HAMP; pfam00672 231023005164 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023005165 metal binding site [ion binding]; metal-binding site 231023005166 active site 231023005167 I-site; other site 231023005168 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 231023005169 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 231023005170 AAA domain; Region: AAA_30; pfam13604 231023005171 Family description; Region: UvrD_C_2; pfam13538 231023005172 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 231023005173 Family description; Region: UvrD_C_2; pfam13538 231023005174 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 231023005175 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 231023005176 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 231023005177 TMAO/DMSO reductase; Reviewed; Region: PRK05363 231023005178 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 231023005179 Moco binding site; other site 231023005180 metal coordination site [ion binding]; other site 231023005181 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 231023005182 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 231023005183 ketol-acid reductoisomerase; Provisional; Region: PRK05479 231023005184 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 231023005185 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 231023005186 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 231023005187 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 231023005188 putative valine binding site [chemical binding]; other site 231023005189 dimer interface [polypeptide binding]; other site 231023005190 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 231023005191 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 231023005192 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 231023005193 PYR/PP interface [polypeptide binding]; other site 231023005194 dimer interface [polypeptide binding]; other site 231023005195 TPP binding site [chemical binding]; other site 231023005196 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 231023005197 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 231023005198 TPP-binding site [chemical binding]; other site 231023005199 dimer interface [polypeptide binding]; other site 231023005200 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 231023005201 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 231023005202 TPR motif; other site 231023005203 binding surface 231023005204 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 231023005205 Transglycosylase; Region: Transgly; pfam00912 231023005206 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 231023005207 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 231023005208 AAA domain; Region: AAA_33; pfam13671 231023005209 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 231023005210 ATP-binding site [chemical binding]; other site 231023005211 Gluconate-6-phosphate binding site [chemical binding]; other site 231023005212 TfoX C-terminal domain; Region: TfoX_C; pfam04994 231023005213 Protein of unknown function, DUF399; Region: DUF399; cl01139 231023005214 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 231023005215 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 231023005216 Walker A/P-loop; other site 231023005217 ATP binding site [chemical binding]; other site 231023005218 Q-loop/lid; other site 231023005219 ABC transporter signature motif; other site 231023005220 Walker B; other site 231023005221 D-loop; other site 231023005222 H-loop/switch region; other site 231023005223 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 231023005224 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 231023005225 ABC-ATPase subunit interface; other site 231023005226 dimer interface [polypeptide binding]; other site 231023005227 putative PBP binding regions; other site 231023005228 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 231023005229 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 231023005230 intersubunit interface [polypeptide binding]; other site 231023005231 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 231023005232 hypothetical protein; Provisional; Region: PRK08960 231023005233 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 231023005234 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023005235 homodimer interface [polypeptide binding]; other site 231023005236 catalytic residue [active] 231023005237 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 231023005238 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 231023005239 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 231023005240 active site 231023005241 nucleotide binding site [chemical binding]; other site 231023005242 HIGH motif; other site 231023005243 KMSKS motif; other site 231023005244 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 231023005245 Na binding site [ion binding]; other site 231023005246 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 231023005247 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023005248 putative active site [active] 231023005249 heme pocket [chemical binding]; other site 231023005250 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023005251 dimer interface [polypeptide binding]; other site 231023005252 phosphorylation site [posttranslational modification] 231023005253 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023005254 ATP binding site [chemical binding]; other site 231023005255 Mg2+ binding site [ion binding]; other site 231023005256 G-X-G motif; other site 231023005257 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 231023005258 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023005259 active site 231023005260 phosphorylation site [posttranslational modification] 231023005261 intermolecular recognition site; other site 231023005262 dimerization interface [polypeptide binding]; other site 231023005263 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023005264 Walker A motif; other site 231023005265 ATP binding site [chemical binding]; other site 231023005266 Walker B motif; other site 231023005267 arginine finger; other site 231023005268 poly(A) polymerase; Region: pcnB; TIGR01942 231023005269 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 231023005270 active site 231023005271 NTP binding site [chemical binding]; other site 231023005272 metal binding triad [ion binding]; metal-binding site 231023005273 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 231023005274 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 231023005275 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 231023005276 catalytic center binding site [active] 231023005277 ATP binding site [chemical binding]; other site 231023005278 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 231023005279 oligomerization interface [polypeptide binding]; other site 231023005280 active site 231023005281 metal binding site [ion binding]; metal-binding site 231023005282 Pantoate-beta-alanine ligase; Region: PanC; cd00560 231023005283 pantoate--beta-alanine ligase; Region: panC; TIGR00018 231023005284 active site 231023005285 ATP-binding site [chemical binding]; other site 231023005286 pantoate-binding site; other site 231023005287 HXXH motif; other site 231023005288 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 231023005289 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 231023005290 active site 231023005291 dimer interface [polypeptide binding]; other site 231023005292 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 231023005293 dimer interface [polypeptide binding]; other site 231023005294 active site 231023005295 acetyl-CoA synthetase; Provisional; Region: PRK00174 231023005296 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 231023005297 active site 231023005298 CoA binding site [chemical binding]; other site 231023005299 acyl-activating enzyme (AAE) consensus motif; other site 231023005300 AMP binding site [chemical binding]; other site 231023005301 acetate binding site [chemical binding]; other site 231023005302 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 231023005303 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 231023005304 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 231023005305 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 231023005306 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 231023005307 ligand binding site [chemical binding]; other site 231023005308 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 231023005309 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 231023005310 active site 231023005311 metal binding site [ion binding]; metal-binding site 231023005312 Uncharacterized conserved protein [Function unknown]; Region: COG1359 231023005313 BON domain; Region: BON; pfam04972 231023005314 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 231023005315 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 231023005316 RNase E interface [polypeptide binding]; other site 231023005317 trimer interface [polypeptide binding]; other site 231023005318 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 231023005319 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 231023005320 RNase E interface [polypeptide binding]; other site 231023005321 trimer interface [polypeptide binding]; other site 231023005322 active site 231023005323 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 231023005324 putative nucleic acid binding region [nucleotide binding]; other site 231023005325 G-X-X-G motif; other site 231023005326 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 231023005327 RNA binding site [nucleotide binding]; other site 231023005328 domain interface; other site 231023005329 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 231023005330 16S/18S rRNA binding site [nucleotide binding]; other site 231023005331 S13e-L30e interaction site [polypeptide binding]; other site 231023005332 25S rRNA binding site [nucleotide binding]; other site 231023005333 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 231023005334 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 231023005335 RNA binding site [nucleotide binding]; other site 231023005336 active site 231023005337 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 231023005338 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 231023005339 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 231023005340 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 231023005341 translation initiation factor IF-2; Region: IF-2; TIGR00487 231023005342 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 231023005343 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 231023005344 G1 box; other site 231023005345 putative GEF interaction site [polypeptide binding]; other site 231023005346 GTP/Mg2+ binding site [chemical binding]; other site 231023005347 Switch I region; other site 231023005348 G2 box; other site 231023005349 G3 box; other site 231023005350 Switch II region; other site 231023005351 G4 box; other site 231023005352 G5 box; other site 231023005353 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 231023005354 Translation-initiation factor 2; Region: IF-2; pfam11987 231023005355 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 231023005356 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 231023005357 NusA N-terminal domain; Region: NusA_N; pfam08529 231023005358 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 231023005359 RNA binding site [nucleotide binding]; other site 231023005360 homodimer interface [polypeptide binding]; other site 231023005361 NusA-like KH domain; Region: KH_5; pfam13184 231023005362 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 231023005363 G-X-X-G motif; other site 231023005364 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 231023005365 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 231023005366 ribosome maturation protein RimP; Reviewed; Region: PRK00092 231023005367 Sm and related proteins; Region: Sm_like; cl00259 231023005368 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 231023005369 putative oligomer interface [polypeptide binding]; other site 231023005370 putative RNA binding site [nucleotide binding]; other site 231023005371 triosephosphate isomerase; Provisional; Region: PRK14567 231023005372 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 231023005373 substrate binding site [chemical binding]; other site 231023005374 dimer interface [polypeptide binding]; other site 231023005375 catalytic triad [active] 231023005376 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 231023005377 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 231023005378 active site 231023005379 substrate binding site [chemical binding]; other site 231023005380 metal binding site [ion binding]; metal-binding site 231023005381 dihydropteroate synthase; Region: DHPS; TIGR01496 231023005382 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 231023005383 substrate binding pocket [chemical binding]; other site 231023005384 dimer interface [polypeptide binding]; other site 231023005385 inhibitor binding site; inhibition site 231023005386 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 231023005387 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023005388 Walker A motif; other site 231023005389 ATP binding site [chemical binding]; other site 231023005390 Walker B motif; other site 231023005391 arginine finger; other site 231023005392 Peptidase family M41; Region: Peptidase_M41; pfam01434 231023005393 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 231023005394 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 231023005395 S-adenosylmethionine binding site [chemical binding]; other site 231023005396 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 231023005397 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 231023005398 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 231023005399 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 231023005400 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 231023005401 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 231023005402 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 231023005403 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 231023005404 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 231023005405 ATP-grasp domain; Region: ATP-grasp_4; cl17255 231023005406 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 231023005407 IMP binding site; other site 231023005408 dimer interface [polypeptide binding]; other site 231023005409 interdomain contacts; other site 231023005410 partial ornithine binding site; other site 231023005411 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 231023005412 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 231023005413 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 231023005414 catalytic site [active] 231023005415 subunit interface [polypeptide binding]; other site 231023005416 dihydrodipicolinate reductase; Provisional; Region: PRK00048 231023005417 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 231023005418 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 231023005419 chaperone protein DnaJ; Provisional; Region: PRK10767 231023005420 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 231023005421 HSP70 interaction site [polypeptide binding]; other site 231023005422 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 231023005423 substrate binding site [polypeptide binding]; other site 231023005424 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 231023005425 Zn binding sites [ion binding]; other site 231023005426 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 231023005427 dimer interface [polypeptide binding]; other site 231023005428 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 231023005429 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 231023005430 nucleotide binding site [chemical binding]; other site 231023005431 NEF interaction site [polypeptide binding]; other site 231023005432 SBD interface [polypeptide binding]; other site 231023005433 GrpE; Region: GrpE; pfam01025 231023005434 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 231023005435 dimer interface [polypeptide binding]; other site 231023005436 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 231023005437 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 231023005438 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 231023005439 Walker A/P-loop; other site 231023005440 ATP binding site [chemical binding]; other site 231023005441 Q-loop/lid; other site 231023005442 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 231023005443 ABC transporter signature motif; other site 231023005444 Walker B; other site 231023005445 D-loop; other site 231023005446 H-loop/switch region; other site 231023005447 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 231023005448 metal binding site 2 [ion binding]; metal-binding site 231023005449 putative DNA binding helix; other site 231023005450 metal binding site 1 [ion binding]; metal-binding site 231023005451 dimer interface [polypeptide binding]; other site 231023005452 structural Zn2+ binding site [ion binding]; other site 231023005453 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 231023005454 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 231023005455 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 231023005456 putative coenzyme Q binding site [chemical binding]; other site 231023005457 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 231023005458 SmpB-tmRNA interface; other site 231023005459 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 231023005460 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023005461 DNA-binding site [nucleotide binding]; DNA binding site 231023005462 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 231023005463 glycolate transporter; Provisional; Region: PRK09695 231023005464 L-lactate permease; Region: Lactate_perm; cl00701 231023005465 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 231023005466 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 231023005467 phosphate binding site [ion binding]; other site 231023005468 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 231023005469 FAD binding domain; Region: FAD_binding_4; pfam01565 231023005470 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 231023005471 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 231023005472 integrase; Provisional; Region: PRK09692 231023005473 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 231023005474 active site 231023005475 Int/Topo IB signature motif; other site 231023005476 Predicted helicase [General function prediction only]; Region: COG4889 231023005477 Restriction endonuclease; Region: Mrr_cat_2; pfam13156 231023005478 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 231023005479 ATP binding site [chemical binding]; other site 231023005480 putative Mg++ binding site [ion binding]; other site 231023005481 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 231023005482 nucleotide binding region [chemical binding]; other site 231023005483 ATP-binding site [chemical binding]; other site 231023005484 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 231023005485 AAA domain; Region: AAA_25; pfam13481 231023005486 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 231023005487 Walker A motif; other site 231023005488 ATP binding site [chemical binding]; other site 231023005489 Walker B motif; other site 231023005490 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 231023005491 multiple promoter invertase; Provisional; Region: mpi; PRK13413 231023005492 catalytic residues [active] 231023005493 catalytic nucleophile [active] 231023005494 Presynaptic Site I dimer interface [polypeptide binding]; other site 231023005495 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 231023005496 Synaptic Flat tetramer interface [polypeptide binding]; other site 231023005497 Synaptic Site I dimer interface [polypeptide binding]; other site 231023005498 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 231023005499 DNA-binding interface [nucleotide binding]; DNA binding site 231023005500 putative transcriptional regulator MerR; Provisional; Region: PRK13752 231023005501 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 231023005502 DNA binding residues [nucleotide binding] 231023005503 dimer interface [polypeptide binding]; other site 231023005504 mercury binding site [ion binding]; other site 231023005505 putative mercuric transport protein; Provisional; Region: PRK13751 231023005506 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 231023005507 metal-binding site [ion binding] 231023005508 Membrane transport protein MerF; Region: Transport_MerF; pfam11431 231023005509 putative mercuric reductase; Provisional; Region: PRK13748 231023005510 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 231023005511 metal-binding site [ion binding] 231023005512 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 231023005513 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 231023005514 transcriptional regulator MerD; Provisional; Region: PRK13749 231023005515 Helix-Turn-Helix DNA binding domain of the MerD transcription regulator; Region: HTH_MerD; cd01111 231023005516 DNA binding residues [nucleotide binding] 231023005517 putative dimer interface [polypeptide binding]; other site 231023005518 putative mercury resistance protein; Provisional; Region: PRK13747 231023005519 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 231023005520 catalytic residues [active] 231023005521 catalytic nucleophile [active] 231023005522 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 231023005523 Presynaptic Site I dimer interface [polypeptide binding]; other site 231023005524 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 231023005525 Synaptic Flat tetramer interface [polypeptide binding]; other site 231023005526 Synaptic Site I dimer interface [polypeptide binding]; other site 231023005527 DNA binding site [nucleotide binding] 231023005528 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 231023005529 DNA-binding interface [nucleotide binding]; DNA binding site 231023005530 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 231023005531 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 231023005532 AsnC family; Region: AsnC_trans_reg; pfam01037 231023005533 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 231023005534 Transposase domain (DUF772); Region: DUF772; pfam05598 231023005535 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 231023005536 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 231023005537 HTH domain; Region: HTH_22; pfam13309 231023005538 multiple promoter invertase; Provisional; Region: mpi; PRK13413 231023005539 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 231023005540 catalytic residues [active] 231023005541 catalytic nucleophile [active] 231023005542 Presynaptic Site I dimer interface [polypeptide binding]; other site 231023005543 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 231023005544 Synaptic Flat tetramer interface [polypeptide binding]; other site 231023005545 Synaptic Site I dimer interface [polypeptide binding]; other site 231023005546 DNA binding site [nucleotide binding] 231023005547 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 231023005548 DNA-binding interface [nucleotide binding]; DNA binding site 231023005549 TniQ; Region: TniQ; pfam06527 231023005550 Bacterial TniB protein; Region: TniB; pfam05621 231023005551 Integrase core domain; Region: rve; pfam00665 231023005552 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 231023005553 Casein kinase II regulatory subunit; Region: CK_II_beta; cl02099 231023005554 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 231023005555 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 231023005556 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 231023005557 PAS domain; Region: PAS_9; pfam13426 231023005558 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023005559 putative active site [active] 231023005560 heme pocket [chemical binding]; other site 231023005561 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 231023005562 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023005563 metal binding site [ion binding]; metal-binding site 231023005564 active site 231023005565 I-site; other site 231023005566 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 231023005567 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023005568 PAS fold; Region: PAS_3; pfam08447 231023005569 putative active site [active] 231023005570 heme pocket [chemical binding]; other site 231023005571 Cornichon protein; Region: Cornichon; cl04000 231023005572 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 231023005573 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 231023005574 dimer interface [polypeptide binding]; other site 231023005575 putative CheW interface [polypeptide binding]; other site 231023005576 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 231023005577 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 231023005578 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 231023005579 integrase; Provisional; Region: PRK09692 231023005580 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 231023005581 active site 231023005582 Int/Topo IB signature motif; other site 231023005583 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 231023005584 Integrase; Region: Integrase_1; pfam12835 231023005585 Protein of unknown function DUF262; Region: DUF262; pfam03235 231023005586 Protein of unknown function DUF262; Region: DUF262; pfam03235 231023005587 Uncharacterized conserved protein [Function unknown]; Region: COG1479 231023005588 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 231023005589 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 231023005590 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 231023005591 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 231023005592 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 231023005593 HsdM N-terminal domain; Region: HsdM_N; pfam12161 231023005594 Methyltransferase domain; Region: Methyltransf_26; pfam13659 231023005595 HNH endonuclease; Region: HNH_2; pfam13391 231023005596 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 231023005597 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 231023005598 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 231023005599 ATP binding site [chemical binding]; other site 231023005600 putative Mg++ binding site [ion binding]; other site 231023005601 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 231023005602 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 231023005603 ATP binding site [chemical binding]; other site 231023005604 putative Mg++ binding site [ion binding]; other site 231023005605 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 231023005606 nucleotide binding region [chemical binding]; other site 231023005607 ATP-binding site [chemical binding]; other site 231023005608 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 231023005609 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 231023005610 ligand binding site [chemical binding]; other site 231023005611 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 231023005612 McrBC 5-methylcytosine restriction system component; Region: McrBC; pfam10117 231023005613 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 231023005614 WYL domain; Region: WYL; pfam13280 231023005615 Secretin and TonB N terminus short domain; Region: STN; smart00965 231023005616 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 231023005617 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 231023005618 N-terminal plug; other site 231023005619 ligand-binding site [chemical binding]; other site 231023005620 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 231023005621 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 231023005622 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 231023005623 D-galactonate transporter; Region: 2A0114; TIGR00893 231023005624 putative substrate translocation pore; other site 231023005625 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 231023005626 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 231023005627 putative ligand binding site [chemical binding]; other site 231023005628 NAD binding site [chemical binding]; other site 231023005629 catalytic site [active] 231023005630 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 231023005631 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023005632 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_1; cd08447 231023005633 putative dimerization interface [polypeptide binding]; other site 231023005634 putative substrate binding pocket [chemical binding]; other site 231023005635 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 231023005636 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 enzymes; Region: D-glucarate_dehydratase; cd03323 231023005637 active site 231023005638 tetramer interface [polypeptide binding]; other site 231023005639 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 231023005640 D-galactonate transporter; Region: 2A0114; TIGR00893 231023005641 putative substrate translocation pore; other site 231023005642 Transcriptional regulators [Transcription]; Region: FadR; COG2186 231023005643 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023005644 DNA-binding site [nucleotide binding]; DNA binding site 231023005645 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 231023005646 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 231023005647 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 231023005648 putative NAD(P) binding site [chemical binding]; other site 231023005649 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 231023005650 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 231023005651 active site 231023005652 motif I; other site 231023005653 motif II; other site 231023005654 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 231023005655 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 231023005656 active site 231023005657 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 231023005658 catalytic triad [active] 231023005659 dimer interface [polypeptide binding]; other site 231023005660 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 231023005661 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 231023005662 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 231023005663 catalytic core [active] 231023005664 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 231023005665 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 231023005666 putative active site [active] 231023005667 Zn binding site [ion binding]; other site 231023005668 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 231023005669 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 231023005670 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 231023005671 ATP binding site [chemical binding]; other site 231023005672 Mg++ binding site [ion binding]; other site 231023005673 motif III; other site 231023005674 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 231023005675 nucleotide binding region [chemical binding]; other site 231023005676 ATP-binding site [chemical binding]; other site 231023005677 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 231023005678 EamA-like transporter family; Region: EamA; pfam00892 231023005679 EamA-like transporter family; Region: EamA; pfam00892 231023005680 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 231023005681 active site 231023005682 catalytic site [active] 231023005683 substrate binding site [chemical binding]; other site 231023005684 Uncharacterized conserved protein [Function unknown]; Region: COG1432 231023005685 LabA_like proteins; Region: LabA; cd10911 231023005686 putative metal binding site [ion binding]; other site 231023005687 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 231023005688 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 231023005689 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 231023005690 ATP binding site [chemical binding]; other site 231023005691 putative Mg++ binding site [ion binding]; other site 231023005692 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 231023005693 nucleotide binding region [chemical binding]; other site 231023005694 ATP-binding site [chemical binding]; other site 231023005695 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 231023005696 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 231023005697 Cation efflux family; Region: Cation_efflux; cl00316 231023005698 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 231023005699 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 231023005700 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 231023005701 putative DNA binding site [nucleotide binding]; other site 231023005702 putative Zn2+ binding site [ion binding]; other site 231023005703 AsnC family; Region: AsnC_trans_reg; pfam01037 231023005704 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 231023005705 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 231023005706 pseudouridine synthase; Region: TIGR00093 231023005707 active site 231023005708 AMP nucleosidase; Provisional; Region: PRK08292 231023005709 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 231023005710 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 231023005711 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 231023005712 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 231023005713 active site 231023005714 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 231023005715 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 231023005716 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023005717 dimer interface [polypeptide binding]; other site 231023005718 phosphorylation site [posttranslational modification] 231023005719 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023005720 ATP binding site [chemical binding]; other site 231023005721 Mg2+ binding site [ion binding]; other site 231023005722 G-X-G motif; other site 231023005723 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 231023005724 dimer interface [polypeptide binding]; other site 231023005725 substrate binding site [chemical binding]; other site 231023005726 ATP binding site [chemical binding]; other site 231023005727 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 231023005728 thiamine phosphate binding site [chemical binding]; other site 231023005729 active site 231023005730 pyrophosphate binding site [ion binding]; other site 231023005731 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 231023005732 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 231023005733 inhibitor-cofactor binding pocket; inhibition site 231023005734 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023005735 catalytic residue [active] 231023005736 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 231023005737 Sel1-like repeats; Region: SEL1; smart00671 231023005738 Sel1-like repeats; Region: SEL1; smart00671 231023005739 Domain of unknown function (DUF1820); Region: DUF1820; cl11545 231023005740 Domain of unknown function (DUF1820); Region: DUF1820; cl11545 231023005741 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 231023005742 PhoH-like protein; Region: PhoH; pfam02562 231023005743 metal-binding heat shock protein; Provisional; Region: PRK00016 231023005744 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 231023005745 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 231023005746 Transporter associated domain; Region: CorC_HlyC; smart01091 231023005747 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 231023005748 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 231023005749 putative active site [active] 231023005750 catalytic triad [active] 231023005751 putative dimer interface [polypeptide binding]; other site 231023005752 Uncharacterized conserved protein [Function unknown]; Region: COG1434 231023005753 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 231023005754 putative active site [active] 231023005755 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 231023005756 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 231023005757 HIGH motif; other site 231023005758 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 231023005759 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 231023005760 active site 231023005761 KMSKS motif; other site 231023005762 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 231023005763 tRNA binding surface [nucleotide binding]; other site 231023005764 Lipopolysaccharide-assembly; Region: LptE; cl01125 231023005765 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 231023005766 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 231023005767 Domain of unknown function; Region: DUF331; cl01149 231023005768 Transglycosylase SLT domain; Region: SLT_2; pfam13406 231023005769 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 231023005770 N-acetyl-D-glucosamine binding site [chemical binding]; other site 231023005771 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 231023005772 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 231023005773 dimer interface [polypeptide binding]; other site 231023005774 catalytic triad [active] 231023005775 lipoyl synthase; Provisional; Region: PRK05481 231023005776 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 231023005777 FeS/SAM binding site; other site 231023005778 lipoate-protein ligase B; Provisional; Region: PRK14342 231023005779 hypothetical protein; Provisional; Region: PRK00341 231023005780 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 231023005781 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 231023005782 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 231023005783 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 231023005784 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 231023005785 Sporulation related domain; Region: SPOR; pfam05036 231023005786 Transglycosylase SLT domain; Region: SLT_2; pfam13406 231023005787 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 231023005788 N-acetyl-D-glucosamine binding site [chemical binding]; other site 231023005789 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 231023005790 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 231023005791 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 231023005792 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 231023005793 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 231023005794 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 231023005795 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 231023005796 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 231023005797 active site 231023005798 (T/H)XGH motif; other site 231023005799 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 231023005800 putative catalytic cysteine [active] 231023005801 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 231023005802 active site 231023005803 DNA binding site [nucleotide binding] 231023005804 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 231023005805 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 231023005806 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 231023005807 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 231023005808 active site 231023005809 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 231023005810 LrgB-like family; Region: LrgB; pfam04172 231023005811 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 231023005812 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 231023005813 putative active site [active] 231023005814 putative catalytic site [active] 231023005815 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 231023005816 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 231023005817 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 231023005818 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 231023005819 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 231023005820 FMN binding site [chemical binding]; other site 231023005821 active site 231023005822 catalytic residues [active] 231023005823 substrate binding site [chemical binding]; other site 231023005824 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 231023005825 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 231023005826 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 231023005827 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 231023005828 purine monophosphate binding site [chemical binding]; other site 231023005829 dimer interface [polypeptide binding]; other site 231023005830 putative catalytic residues [active] 231023005831 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 231023005832 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 231023005833 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 231023005834 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 231023005835 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 231023005836 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 231023005837 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 231023005838 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 231023005839 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023005840 dimer interface [polypeptide binding]; other site 231023005841 phosphorylation site [posttranslational modification] 231023005842 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023005843 ATP binding site [chemical binding]; other site 231023005844 Mg2+ binding site [ion binding]; other site 231023005845 G-X-G motif; other site 231023005846 Response regulator receiver domain; Region: Response_reg; pfam00072 231023005847 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023005848 active site 231023005849 phosphorylation site [posttranslational modification] 231023005850 intermolecular recognition site; other site 231023005851 dimerization interface [polypeptide binding]; other site 231023005852 Response regulator receiver domain; Region: Response_reg; pfam00072 231023005853 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023005854 active site 231023005855 phosphorylation site [posttranslational modification] 231023005856 intermolecular recognition site; other site 231023005857 dimerization interface [polypeptide binding]; other site 231023005858 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 231023005859 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 231023005860 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 231023005861 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 231023005862 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 231023005863 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 231023005864 active site 231023005865 SAM binding site [chemical binding]; other site 231023005866 homodimer interface [polypeptide binding]; other site 231023005867 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 231023005868 homodimer interface [polypeptide binding]; other site 231023005869 active site 231023005870 SAM binding site [chemical binding]; other site 231023005871 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 231023005872 Precorrin-8X methylmutase; Region: CbiC; pfam02570 231023005873 precorrin-3B synthase; Region: CobG; TIGR02435 231023005874 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 231023005875 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 231023005876 active site 231023005877 putative homodimer interface [polypeptide binding]; other site 231023005878 SAM binding site [chemical binding]; other site 231023005879 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 231023005880 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 231023005881 S-adenosylmethionine binding site [chemical binding]; other site 231023005882 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 231023005883 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 231023005884 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 231023005885 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 231023005886 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 231023005887 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 231023005888 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 231023005889 Protein of unknown function (DUF461); Region: DUF461; pfam04314 231023005890 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 231023005891 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 231023005892 N-terminal plug; other site 231023005893 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 231023005894 ligand-binding site [chemical binding]; other site 231023005895 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 231023005896 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 231023005897 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 231023005898 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 231023005899 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 231023005900 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 231023005901 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 231023005902 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 231023005903 putative ligand binding site [chemical binding]; other site 231023005904 HEAT repeats; Region: HEAT_2; pfam13646 231023005905 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 231023005906 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 231023005907 TM-ABC transporter signature motif; other site 231023005908 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 231023005909 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 231023005910 TM-ABC transporter signature motif; other site 231023005911 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 231023005912 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 231023005913 Walker A/P-loop; other site 231023005914 ATP binding site [chemical binding]; other site 231023005915 Q-loop/lid; other site 231023005916 ABC transporter signature motif; other site 231023005917 Walker B; other site 231023005918 D-loop; other site 231023005919 H-loop/switch region; other site 231023005920 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 231023005921 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 231023005922 Walker A/P-loop; other site 231023005923 ATP binding site [chemical binding]; other site 231023005924 Q-loop/lid; other site 231023005925 ABC transporter signature motif; other site 231023005926 Walker B; other site 231023005927 D-loop; other site 231023005928 H-loop/switch region; other site 231023005929 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 231023005930 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 231023005931 Coenzyme A binding pocket [chemical binding]; other site 231023005932 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 231023005933 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 231023005934 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 231023005935 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 231023005936 HSP70 interaction site [polypeptide binding]; other site 231023005937 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 231023005938 substrate binding site [polypeptide binding]; other site 231023005939 dimer interface [polypeptide binding]; other site 231023005940 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 231023005941 putative chaperone; Provisional; Region: PRK11678 231023005942 nucleotide binding site [chemical binding]; other site 231023005943 putative NEF/HSP70 interaction site [polypeptide binding]; other site 231023005944 SBD interface [polypeptide binding]; other site 231023005945 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 231023005946 hypothetical protein; Provisional; Region: PRK11505 231023005947 psiF repeat; Region: PsiF_repeat; pfam07769 231023005948 psiF repeat; Region: PsiF_repeat; pfam07769 231023005949 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 231023005950 Helix-turn-helix domain; Region: HTH_18; pfam12833 231023005951 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023005952 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 231023005953 EamA-like transporter family; Region: EamA; pfam00892 231023005954 EamA-like transporter family; Region: EamA; pfam00892 231023005955 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 231023005956 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 231023005957 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 231023005958 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 231023005959 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 231023005960 Ferritin-like domain; Region: Ferritin; pfam00210 231023005961 dinuclear metal binding motif [ion binding]; other site 231023005962 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 231023005963 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 231023005964 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 231023005965 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 231023005966 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 231023005967 dimerization interface [polypeptide binding]; other site 231023005968 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; cl00183 231023005969 putative active cleft [active] 231023005970 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 231023005971 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 231023005972 putative NAD(P) binding site [chemical binding]; other site 231023005973 homotetramer interface [polypeptide binding]; other site 231023005974 homodimer interface [polypeptide binding]; other site 231023005975 active site 231023005976 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 231023005977 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 231023005978 Walker A/P-loop; other site 231023005979 ATP binding site [chemical binding]; other site 231023005980 Q-loop/lid; other site 231023005981 ABC transporter signature motif; other site 231023005982 Walker B; other site 231023005983 D-loop; other site 231023005984 H-loop/switch region; other site 231023005985 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 231023005986 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 231023005987 Walker A/P-loop; other site 231023005988 ATP binding site [chemical binding]; other site 231023005989 Q-loop/lid; other site 231023005990 ABC transporter signature motif; other site 231023005991 Walker B; other site 231023005992 D-loop; other site 231023005993 H-loop/switch region; other site 231023005994 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 231023005995 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 231023005996 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 231023005997 TM-ABC transporter signature motif; other site 231023005998 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 231023005999 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 231023006000 TM-ABC transporter signature motif; other site 231023006001 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 231023006002 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 231023006003 dimerization interface [polypeptide binding]; other site 231023006004 ligand binding site [chemical binding]; other site 231023006005 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 231023006006 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 231023006007 active site 231023006008 NAD+ synthetase; Region: nadE; TIGR00552 231023006009 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 231023006010 homodimer interface [polypeptide binding]; other site 231023006011 NAD binding pocket [chemical binding]; other site 231023006012 ATP binding pocket [chemical binding]; other site 231023006013 Mg binding site [ion binding]; other site 231023006014 active-site loop [active] 231023006015 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 231023006016 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 231023006017 hypothetical protein; Provisional; Region: PRK01254 231023006018 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 231023006019 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 231023006020 replicative DNA helicase; Provisional; Region: PRK05748 231023006021 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 231023006022 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 231023006023 Walker A motif; other site 231023006024 ATP binding site [chemical binding]; other site 231023006025 Walker B motif; other site 231023006026 DNA binding loops [nucleotide binding] 231023006027 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 231023006028 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 231023006029 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 231023006030 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 231023006031 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 231023006032 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 231023006033 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 231023006034 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 231023006035 ribonuclease R; Region: RNase_R; TIGR02063 231023006036 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 231023006037 RNB domain; Region: RNB; pfam00773 231023006038 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 231023006039 RNA binding site [nucleotide binding]; other site 231023006040 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 231023006041 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 231023006042 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 231023006043 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023006044 dimer interface [polypeptide binding]; other site 231023006045 conserved gate region; other site 231023006046 putative PBP binding loops; other site 231023006047 ABC-ATPase subunit interface; other site 231023006048 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 231023006049 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023006050 dimer interface [polypeptide binding]; other site 231023006051 conserved gate region; other site 231023006052 putative PBP binding loops; other site 231023006053 ABC-ATPase subunit interface; other site 231023006054 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 231023006055 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023006056 dimerization interface [polypeptide binding]; other site 231023006057 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 231023006058 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 231023006059 dimer interface [polypeptide binding]; other site 231023006060 putative CheW interface [polypeptide binding]; other site 231023006061 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 231023006062 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 231023006063 GDP-binding site [chemical binding]; other site 231023006064 ACT binding site; other site 231023006065 IMP binding site; other site 231023006066 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 231023006067 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 231023006068 dimer interface [polypeptide binding]; other site 231023006069 motif 1; other site 231023006070 active site 231023006071 motif 2; other site 231023006072 motif 3; other site 231023006073 FtsH protease regulator HflC; Provisional; Region: PRK11029 231023006074 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 231023006075 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 231023006076 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 231023006077 HflK protein; Region: hflK; TIGR01933 231023006078 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 231023006079 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 231023006080 HflX GTPase family; Region: HflX; cd01878 231023006081 G1 box; other site 231023006082 GTP/Mg2+ binding site [chemical binding]; other site 231023006083 Switch I region; other site 231023006084 G2 box; other site 231023006085 G3 box; other site 231023006086 Switch II region; other site 231023006087 G4 box; other site 231023006088 G5 box; other site 231023006089 bacterial Hfq-like; Region: Hfq; cd01716 231023006090 hexamer interface [polypeptide binding]; other site 231023006091 Sm1 motif; other site 231023006092 RNA binding site [nucleotide binding]; other site 231023006093 Sm2 motif; other site 231023006094 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 231023006095 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 231023006096 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 231023006097 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023006098 ATP binding site [chemical binding]; other site 231023006099 Mg2+ binding site [ion binding]; other site 231023006100 G-X-G motif; other site 231023006101 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 231023006102 ATP binding site [chemical binding]; other site 231023006103 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 231023006104 AMIN domain; Region: AMIN; pfam11741 231023006105 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 231023006106 active site 231023006107 metal binding site [ion binding]; metal-binding site 231023006108 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 231023006109 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 231023006110 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 231023006111 putative ATP binding site [chemical binding]; other site 231023006112 putative substrate binding site [chemical binding]; other site 231023006113 epoxyqueuosine reductase; Region: TIGR00276 231023006114 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 231023006115 Predicted membrane protein [Function unknown]; Region: COG2860 231023006116 UPF0126 domain; Region: UPF0126; pfam03458 231023006117 UPF0126 domain; Region: UPF0126; pfam03458 231023006118 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 231023006119 catalytic site [active] 231023006120 putative active site [active] 231023006121 putative substrate binding site [chemical binding]; other site 231023006122 dimer interface [polypeptide binding]; other site 231023006123 GTPase RsgA; Reviewed; Region: PRK12288 231023006124 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 231023006125 RNA binding site [nucleotide binding]; other site 231023006126 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 231023006127 GTPase/Zn-binding domain interface [polypeptide binding]; other site 231023006128 GTP/Mg2+ binding site [chemical binding]; other site 231023006129 G4 box; other site 231023006130 G5 box; other site 231023006131 G1 box; other site 231023006132 Switch I region; other site 231023006133 G2 box; other site 231023006134 G3 box; other site 231023006135 Switch II region; other site 231023006136 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 231023006137 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 231023006138 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 231023006139 ligand binding site [chemical binding]; other site 231023006140 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 231023006141 flagellar motor protein MotA; Validated; Region: PRK09110 231023006142 HDOD domain; Region: HDOD; pfam08668 231023006143 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 231023006144 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 231023006145 active site residue [active] 231023006146 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 231023006147 active site residue [active] 231023006148 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 231023006149 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 231023006150 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 231023006151 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 231023006152 phosphoserine phosphatase SerB; Region: serB; TIGR00338 231023006153 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 231023006154 motif II; other site 231023006155 Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]; Region: AhpA; COG3726 231023006156 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 231023006157 Protein of unknown function (DUF330); Region: DUF330; pfam03886 231023006158 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 231023006159 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 231023006160 CAP-like domain; other site 231023006161 active site 231023006162 primary dimer interface [polypeptide binding]; other site 231023006163 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 231023006164 catalytic motif [active] 231023006165 Catalytic residue [active] 231023006166 SdiA-regulated; Region: SdiA-regulated; cd09971 231023006167 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 231023006168 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023006169 ATP binding site [chemical binding]; other site 231023006170 Mg2+ binding site [ion binding]; other site 231023006171 G-X-G motif; other site 231023006172 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 231023006173 anchoring element; other site 231023006174 dimer interface [polypeptide binding]; other site 231023006175 ATP binding site [chemical binding]; other site 231023006176 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 231023006177 active site 231023006178 metal binding site [ion binding]; metal-binding site 231023006179 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 231023006180 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 231023006181 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 231023006182 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 231023006183 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 231023006184 active site 231023006185 metal binding site [ion binding]; metal-binding site 231023006186 hexamer interface [polypeptide binding]; other site 231023006187 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 231023006188 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 231023006189 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 231023006190 dimer interface [polypeptide binding]; other site 231023006191 ADP-ribose binding site [chemical binding]; other site 231023006192 active site 231023006193 nudix motif; other site 231023006194 metal binding site [ion binding]; metal-binding site 231023006195 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 231023006196 Na binding site [ion binding]; other site 231023006197 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 231023006198 ThiC-associated domain; Region: ThiC-associated; pfam13667 231023006199 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 231023006200 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 231023006201 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 231023006202 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 231023006203 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 231023006204 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023006205 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023006206 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 231023006207 dimerization interface [polypeptide binding]; other site 231023006208 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 231023006209 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 231023006210 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 231023006211 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 231023006212 active site 231023006213 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 231023006214 catalytic tetrad [active] 231023006215 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 231023006216 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 231023006217 putative ribose interaction site [chemical binding]; other site 231023006218 putative ADP binding site [chemical binding]; other site 231023006219 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 231023006220 active site 231023006221 nucleotide binding site [chemical binding]; other site 231023006222 HIGH motif; other site 231023006223 KMSKS motif; other site 231023006224 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 231023006225 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 231023006226 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 231023006227 Walker A/P-loop; other site 231023006228 ATP binding site [chemical binding]; other site 231023006229 Q-loop/lid; other site 231023006230 ABC transporter signature motif; other site 231023006231 Walker B; other site 231023006232 D-loop; other site 231023006233 H-loop/switch region; other site 231023006234 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 231023006235 O-Antigen ligase; Region: Wzy_C; pfam04932 231023006236 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 231023006237 active site 231023006238 substrate binding site [chemical binding]; other site 231023006239 ATP binding site [chemical binding]; other site 231023006240 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 231023006241 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 231023006242 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 231023006243 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 231023006244 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 231023006245 Mig-14; Region: Mig-14; pfam07395 231023006246 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 231023006247 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 231023006248 putative ADP-binding pocket [chemical binding]; other site 231023006249 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 231023006250 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 231023006251 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 231023006252 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 231023006253 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 231023006254 Na binding site [ion binding]; other site 231023006255 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 231023006256 Predicted transcriptional regulator [Transcription]; Region: COG3905 231023006257 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 231023006258 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 231023006259 Glutamate binding site [chemical binding]; other site 231023006260 NAD binding site [chemical binding]; other site 231023006261 catalytic residues [active] 231023006262 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 231023006263 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 231023006264 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 231023006265 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 231023006266 active site 231023006267 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 231023006268 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 231023006269 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 231023006270 putative transporter; Provisional; Region: PRK10504 231023006271 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 231023006272 putative substrate translocation pore; other site 231023006273 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 231023006274 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 231023006275 ATP binding site [chemical binding]; other site 231023006276 Mg++ binding site [ion binding]; other site 231023006277 motif III; other site 231023006278 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 231023006279 nucleotide binding region [chemical binding]; other site 231023006280 ATP-binding site [chemical binding]; other site 231023006281 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 231023006282 putative RNA binding site [nucleotide binding]; other site 231023006283 HI0933-like protein; Region: HI0933_like; pfam03486 231023006284 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 231023006285 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 231023006286 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 231023006287 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 231023006288 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 231023006289 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023006290 substrate binding pocket [chemical binding]; other site 231023006291 membrane-bound complex binding site; other site 231023006292 hinge residues; other site 231023006293 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 231023006294 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; pfam09904 231023006295 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 231023006296 Response regulator receiver domain; Region: Response_reg; pfam00072 231023006297 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023006298 active site 231023006299 phosphorylation site [posttranslational modification] 231023006300 intermolecular recognition site; other site 231023006301 dimerization interface [polypeptide binding]; other site 231023006302 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023006303 PAS domain; Region: PAS_9; pfam13426 231023006304 putative active site [active] 231023006305 heme pocket [chemical binding]; other site 231023006306 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 231023006307 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023006308 metal binding site [ion binding]; metal-binding site 231023006309 active site 231023006310 I-site; other site 231023006311 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 231023006312 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 231023006313 intersubunit interface [polypeptide binding]; other site 231023006314 active site 231023006315 zinc binding site [ion binding]; other site 231023006316 Na+ binding site [ion binding]; other site 231023006317 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 231023006318 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 231023006319 Phosphoglycerate kinase; Region: PGK; pfam00162 231023006320 substrate binding site [chemical binding]; other site 231023006321 hinge regions; other site 231023006322 ADP binding site [chemical binding]; other site 231023006323 catalytic site [active] 231023006324 erythrose-4-phosphate dehydrogenase; Region: E4PD_g-proteo; TIGR01532 231023006325 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 231023006326 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 231023006327 transketolase; Reviewed; Region: PRK12753 231023006328 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 231023006329 TPP-binding site [chemical binding]; other site 231023006330 dimer interface [polypeptide binding]; other site 231023006331 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 231023006332 PYR/PP interface [polypeptide binding]; other site 231023006333 dimer interface [polypeptide binding]; other site 231023006334 TPP binding site [chemical binding]; other site 231023006335 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 231023006336 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 231023006337 putative DNA binding site [nucleotide binding]; other site 231023006338 Methyltransferase domain; Region: Methyltransf_23; pfam13489 231023006339 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 231023006340 S-adenosylmethionine binding site [chemical binding]; other site 231023006341 S-adenosylmethionine synthetase; Validated; Region: PRK05250 231023006342 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 231023006343 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 231023006344 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 231023006345 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 231023006346 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 231023006347 nucleotide binding pocket [chemical binding]; other site 231023006348 K-X-D-G motif; other site 231023006349 catalytic site [active] 231023006350 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 231023006351 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 231023006352 Cytochrome C' Region: Cytochrom_C_2; pfam01322 231023006353 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 231023006354 MltA specific insert domain; Region: MltA; pfam03562 231023006355 3D domain; Region: 3D; pfam06725 231023006356 MAPEG family; Region: MAPEG; cl09190 231023006357 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 231023006358 EamA-like transporter family; Region: EamA; pfam00892 231023006359 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 231023006360 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 231023006361 putative transposase OrfB; Reviewed; Region: PHA02517 231023006362 HTH-like domain; Region: HTH_21; pfam13276 231023006363 Integrase core domain; Region: rve; pfam00665 231023006364 Integrase core domain; Region: rve_2; pfam13333 231023006365 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 231023006366 Homeodomain-like domain; Region: HTH_23; cl17451 231023006367 Helix-turn-helix domain; Region: HTH_28; pfam13518 231023006368 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 231023006369 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 231023006370 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 231023006371 homotetramer interface [polypeptide binding]; other site 231023006372 ligand binding site [chemical binding]; other site 231023006373 catalytic site [active] 231023006374 NAD binding site [chemical binding]; other site 231023006375 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 231023006376 FAD binding site [chemical binding]; other site 231023006377 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 231023006378 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023006379 substrate binding pocket [chemical binding]; other site 231023006380 membrane-bound complex binding site; other site 231023006381 hinge residues; other site 231023006382 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 231023006383 putative Mg++ binding site [ion binding]; other site 231023006384 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 231023006385 nucleotide binding region [chemical binding]; other site 231023006386 ATP-binding site [chemical binding]; other site 231023006387 hypothetical protein; Provisional; Region: PRK03757 231023006388 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 231023006389 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 231023006390 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 231023006391 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 231023006392 inhibitor-cofactor binding pocket; inhibition site 231023006393 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023006394 catalytic residue [active] 231023006395 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 231023006396 RNA methyltransferase, RsmE family; Region: TIGR00046 231023006397 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 231023006398 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 231023006399 CheW-like domain; Region: CheW; pfam01584 231023006400 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 231023006401 putative binding surface; other site 231023006402 active site 231023006403 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 231023006404 putative binding surface; other site 231023006405 active site 231023006406 Hpt domain; Region: Hpt; pfam01627 231023006407 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 231023006408 putative binding surface; other site 231023006409 active site 231023006410 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 231023006411 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 231023006412 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023006413 ATP binding site [chemical binding]; other site 231023006414 Mg2+ binding site [ion binding]; other site 231023006415 G-X-G motif; other site 231023006416 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 231023006417 Response regulator receiver domain; Region: Response_reg; pfam00072 231023006418 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023006419 active site 231023006420 phosphorylation site [posttranslational modification] 231023006421 intermolecular recognition site; other site 231023006422 dimerization interface [polypeptide binding]; other site 231023006423 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 231023006424 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 231023006425 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 231023006426 dimer interface [polypeptide binding]; other site 231023006427 putative CheW interface [polypeptide binding]; other site 231023006428 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 231023006429 Response regulator receiver domain; Region: Response_reg; pfam00072 231023006430 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023006431 active site 231023006432 phosphorylation site [posttranslational modification] 231023006433 intermolecular recognition site; other site 231023006434 dimerization interface [polypeptide binding]; other site 231023006435 Response regulator receiver domain; Region: Response_reg; pfam00072 231023006436 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023006437 active site 231023006438 phosphorylation site [posttranslational modification] 231023006439 intermolecular recognition site; other site 231023006440 dimerization interface [polypeptide binding]; other site 231023006441 glutathione synthetase; Provisional; Region: PRK05246 231023006442 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 231023006443 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 231023006444 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 231023006445 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 231023006446 hypothetical protein; Validated; Region: PRK00228 231023006447 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 231023006448 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 231023006449 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 231023006450 active site 231023006451 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 231023006452 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 231023006453 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 231023006454 dihydroorotase; Validated; Region: pyrC; PRK09357 231023006455 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 231023006456 active site 231023006457 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 231023006458 active site 231023006459 HslU subunit interaction site [polypeptide binding]; other site 231023006460 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 231023006461 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023006462 Walker A motif; other site 231023006463 ATP binding site [chemical binding]; other site 231023006464 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 231023006465 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 231023006466 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 231023006467 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 231023006468 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 231023006469 poly(3-hydroxyalkanoate) depolymerase; Region: PHA_depoly_arom; TIGR02240 231023006470 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 231023006471 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 231023006472 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 231023006473 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 231023006474 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 231023006475 Bacterial transcriptional repressor; Region: TetR; pfam13972 231023006476 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 231023006477 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 231023006478 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 231023006479 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 231023006480 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 231023006481 S-adenosylmethionine binding site [chemical binding]; other site 231023006482 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 231023006483 SCP-2 sterol transfer family; Region: SCP2; pfam02036 231023006484 ABC1 family; Region: ABC1; cl17513 231023006485 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 231023006486 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 231023006487 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 231023006488 metal binding site [ion binding]; metal-binding site 231023006489 twin arginine translocase protein A; Provisional; Region: tatA; PRK00442 231023006490 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 231023006491 sec-independent translocase; Provisional; Region: tatB; PRK00404 231023006492 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 231023006493 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 231023006494 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 231023006495 RNA methyltransferase, RsmE family; Region: TIGR00046 231023006496 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023006497 dimerization interface [polypeptide binding]; other site 231023006498 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 231023006499 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 231023006500 dimer interface [polypeptide binding]; other site 231023006501 putative CheW interface [polypeptide binding]; other site 231023006502 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023006503 dimerization interface [polypeptide binding]; other site 231023006504 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 231023006505 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 231023006506 dimer interface [polypeptide binding]; other site 231023006507 putative CheW interface [polypeptide binding]; other site 231023006508 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 231023006509 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 231023006510 Walker A/P-loop; other site 231023006511 ATP binding site [chemical binding]; other site 231023006512 Q-loop/lid; other site 231023006513 ABC transporter signature motif; other site 231023006514 Walker B; other site 231023006515 D-loop; other site 231023006516 H-loop/switch region; other site 231023006517 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 231023006518 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023006519 dimer interface [polypeptide binding]; other site 231023006520 conserved gate region; other site 231023006521 putative PBP binding loops; other site 231023006522 ABC-ATPase subunit interface; other site 231023006523 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 231023006524 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023006525 substrate binding pocket [chemical binding]; other site 231023006526 membrane-bound complex binding site; other site 231023006527 hinge residues; other site 231023006528 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 231023006529 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 231023006530 Ligand binding site; other site 231023006531 DXD motif; other site 231023006532 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 231023006533 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 231023006534 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 231023006535 dimerization interface [polypeptide binding]; other site 231023006536 putative tRNAtyr binding site [nucleotide binding]; other site 231023006537 putative active site [active] 231023006538 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 231023006539 TAP-like protein; Region: Abhydrolase_4; pfam08386 231023006540 N-formylglutamate amidohydrolase; Region: hutG_amidohyd; TIGR02017 231023006541 imidazolonepropionase; Validated; Region: PRK09356 231023006542 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 231023006543 active site 231023006544 putative proline-specific permease; Provisional; Region: proY; PRK10580 231023006545 Spore germination protein; Region: Spore_permease; cl17796 231023006546 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 231023006547 active sites [active] 231023006548 tetramer interface [polypeptide binding]; other site 231023006549 urocanate hydratase; Provisional; Region: PRK05414 231023006550 HutD; Region: HutD; pfam05962 231023006551 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 231023006552 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023006553 DNA-binding site [nucleotide binding]; DNA binding site 231023006554 UTRA domain; Region: UTRA; pfam07702 231023006555 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 231023006556 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 231023006557 active site 231023006558 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 231023006559 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 231023006560 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 231023006561 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 231023006562 Transposase; Region: DDE_Tnp_ISL3; pfam01610 231023006563 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 231023006564 fructose-1,6-bisphosphatase family protein; Region: PLN02628 231023006565 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 231023006566 AMP binding site [chemical binding]; other site 231023006567 metal binding site [ion binding]; metal-binding site 231023006568 active site 231023006569 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 231023006570 homodimer interface [polypeptide binding]; other site 231023006571 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 231023006572 active site pocket [active] 231023006573 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 231023006574 PhoPQ-activated pathogenicity-related protein; Region: PhoPQ_related; pfam10142 231023006575 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 231023006576 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 231023006577 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 231023006578 G1 box; other site 231023006579 putative GEF interaction site [polypeptide binding]; other site 231023006580 GTP/Mg2+ binding site [chemical binding]; other site 231023006581 Switch I region; other site 231023006582 G2 box; other site 231023006583 G3 box; other site 231023006584 Switch II region; other site 231023006585 G4 box; other site 231023006586 G5 box; other site 231023006587 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 231023006588 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 231023006589 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 231023006590 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 231023006591 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 231023006592 Ligand Binding Site [chemical binding]; other site 231023006593 thiazole biosynthesis domain; Region: ThiI_C_thiazole; TIGR04271 231023006594 glutamine synthetase; Provisional; Region: glnA; PRK09469 231023006595 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 231023006596 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 231023006597 chorismate mutase; Provisional; Region: PRK09269 231023006598 Chorismate mutase type II; Region: CM_2; cl00693 231023006599 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 231023006600 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023006601 dimer interface [polypeptide binding]; other site 231023006602 phosphorylation site [posttranslational modification] 231023006603 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023006604 ATP binding site [chemical binding]; other site 231023006605 Mg2+ binding site [ion binding]; other site 231023006606 G-X-G motif; other site 231023006607 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 231023006608 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023006609 active site 231023006610 phosphorylation site [posttranslational modification] 231023006611 intermolecular recognition site; other site 231023006612 dimerization interface [polypeptide binding]; other site 231023006613 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023006614 Walker A motif; other site 231023006615 ATP binding site [chemical binding]; other site 231023006616 Walker B motif; other site 231023006617 arginine finger; other site 231023006618 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 231023006619 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 231023006620 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 231023006621 SecA binding site; other site 231023006622 Preprotein binding site; other site 231023006623 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 231023006624 GSH binding site [chemical binding]; other site 231023006625 catalytic residues [active] 231023006626 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 231023006627 active site residue [active] 231023006628 phosphoglyceromutase; Provisional; Region: PRK05434 231023006629 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 231023006630 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 231023006631 Peptidase family M23; Region: Peptidase_M23; pfam01551 231023006632 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 231023006633 C-terminal peptidase (prc); Region: prc; TIGR00225 231023006634 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 231023006635 protein binding site [polypeptide binding]; other site 231023006636 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 231023006637 Catalytic dyad [active] 231023006638 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 231023006639 NodB motif; other site 231023006640 putative active site [active] 231023006641 putative catalytic site [active] 231023006642 Zn binding site [ion binding]; other site 231023006643 BCCT family transporter; Region: BCCT; cl00569 231023006644 transcriptional regulator BetI; Validated; Region: PRK00767 231023006645 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 231023006646 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 231023006647 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 231023006648 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 231023006649 NAD(P) binding site [chemical binding]; other site 231023006650 catalytic residues [active] 231023006651 choline dehydrogenase; Validated; Region: PRK02106 231023006652 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 231023006653 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 231023006654 potassium/proton antiporter; Reviewed; Region: PRK05326 231023006655 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 231023006656 TrkA-C domain; Region: TrkA_C; pfam02080 231023006657 Transporter associated domain; Region: CorC_HlyC; smart01091 231023006658 hypothetical protein; Provisional; Region: PRK11281 231023006659 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 231023006660 Mechanosensitive ion channel; Region: MS_channel; pfam00924 231023006661 Uncharacterized conserved protein [Function unknown]; Region: COG0397 231023006662 hypothetical protein; Validated; Region: PRK00029 231023006663 thioredoxin 2; Provisional; Region: PRK10996 231023006664 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 231023006665 catalytic residues [active] 231023006666 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 231023006667 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 231023006668 P-loop; other site 231023006669 Magnesium ion binding site [ion binding]; other site 231023006670 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 231023006671 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023006672 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023006673 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 231023006674 dimerization interface [polypeptide binding]; other site 231023006675 substrate binding pocket [chemical binding]; other site 231023006676 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 231023006677 Major Facilitator Superfamily; Region: MFS_1; pfam07690 231023006678 putative substrate translocation pore; other site 231023006679 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 231023006680 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 231023006681 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 231023006682 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 231023006683 GspL periplasmic domain; Region: GspL_C; cl14909 231023006684 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 231023006685 type II secretion system protein J; Region: gspJ; TIGR01711 231023006686 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 231023006687 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 231023006688 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 231023006689 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 231023006690 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 231023006691 type II secretion system protein F; Region: GspF; TIGR02120 231023006692 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 231023006693 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 231023006694 type II secretion system protein E; Region: type_II_gspE; TIGR02533 231023006695 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 231023006696 Walker A motif; other site 231023006697 ATP binding site [chemical binding]; other site 231023006698 Walker B motif; other site 231023006699 type II secretion system protein D; Region: type_II_gspD; TIGR02517 231023006700 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 231023006701 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 231023006702 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 231023006703 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 231023006704 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 231023006705 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 231023006706 N-acetylglucosamine-binding protein A; Reviewed; Region: PRK13211 231023006707 Chitin binding domain; Region: Chitin_bind_3; pfam03067 231023006708 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 231023006709 substrate binding site [chemical binding]; other site 231023006710 active site 231023006711 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 231023006712 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 231023006713 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 231023006714 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 231023006715 active site 231023006716 dimer interface [polypeptide binding]; other site 231023006717 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 231023006718 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 231023006719 active site 231023006720 FMN binding site [chemical binding]; other site 231023006721 substrate binding site [chemical binding]; other site 231023006722 3Fe-4S cluster binding site [ion binding]; other site 231023006723 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 231023006724 domain interface; other site 231023006725 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 231023006726 Sporulation related domain; Region: SPOR; pfam05036 231023006727 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 231023006728 active site 231023006729 dimer interface [polypeptide binding]; other site 231023006730 metal binding site [ion binding]; metal-binding site 231023006731 shikimate kinase; Reviewed; Region: aroK; PRK00131 231023006732 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 231023006733 ADP binding site [chemical binding]; other site 231023006734 magnesium binding site [ion binding]; other site 231023006735 putative shikimate binding site; other site 231023006736 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 231023006737 Secretin and TonB N terminus short domain; Region: STN; smart00965 231023006738 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 231023006739 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 231023006740 Pilus assembly protein, PilO; Region: PilO; cl01234 231023006741 Pilus assembly protein, PilP; Region: PilP; pfam04351 231023006742 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 231023006743 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 231023006744 Competence protein A; Region: Competence_A; pfam11104 231023006745 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 231023006746 Transglycosylase; Region: Transgly; pfam00912 231023006747 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 231023006748 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 231023006749 Malic enzyme, N-terminal domain; Region: malic; pfam00390 231023006750 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 231023006751 putative NAD(P) binding site [chemical binding]; other site 231023006752 Staphylococcal nuclease homologues; Region: SNc; smart00318 231023006753 Catalytic site; other site 231023006754 Staphylococcal nuclease homologue; Region: SNase; pfam00565 231023006755 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 231023006756 primosome assembly protein PriA; Validated; Region: PRK05580 231023006757 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 231023006758 ATP binding site [chemical binding]; other site 231023006759 putative Mg++ binding site [ion binding]; other site 231023006760 helicase superfamily c-terminal domain; Region: HELICc; smart00490 231023006761 ATP-binding site [chemical binding]; other site 231023006762 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 231023006763 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 231023006764 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 231023006765 active site 231023006766 HIGH motif; other site 231023006767 KMSK motif region; other site 231023006768 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 231023006769 tRNA binding surface [nucleotide binding]; other site 231023006770 anticodon binding site; other site 231023006771 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 231023006772 Sporulation related domain; Region: SPOR; pfam05036 231023006773 TM2 domain; Region: TM2; cl00984 231023006774 TM2 domain; Region: TM2; cl00984 231023006775 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 231023006776 NlpC/P60 family; Region: NLPC_P60; pfam00877 231023006777 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 231023006778 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 231023006779 Walker A motif; other site 231023006780 ATP binding site [chemical binding]; other site 231023006781 Walker B motif; other site 231023006782 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 231023006783 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 231023006784 catalytic residue [active] 231023006785 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 231023006786 pyrroline-5-carboxylate reductase; Region: PLN02688 231023006787 YGGT family; Region: YGGT; pfam02325 231023006788 YGGT family; Region: YGGT; pfam02325 231023006789 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 231023006790 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 231023006791 hypothetical protein; Provisional; Region: PRK08317 231023006792 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 231023006793 S-adenosylmethionine binding site [chemical binding]; other site 231023006794 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 231023006795 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 231023006796 active site 231023006797 dimerization interface [polypeptide binding]; other site 231023006798 HemN family oxidoreductase; Provisional; Region: PRK05660 231023006799 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 231023006800 FeS/SAM binding site; other site 231023006801 HemN C-terminal domain; Region: HemN_C; pfam06969 231023006802 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 231023006803 Methyltransferase domain; Region: Methyltransf_31; pfam13847 231023006804 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 231023006805 S-adenosylmethionine binding site [chemical binding]; other site 231023006806 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 231023006807 ThiS interaction site; other site 231023006808 putative active site [active] 231023006809 tetramer interface [polypeptide binding]; other site 231023006810 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 231023006811 thiS-thiF/thiG interaction site; other site 231023006812 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 231023006813 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 231023006814 Transglycosylase; Region: Transgly; cl17702 231023006815 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 231023006816 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 231023006817 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 231023006818 DNA binding residues [nucleotide binding] 231023006819 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 231023006820 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 231023006821 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 231023006822 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023006823 Walker A/P-loop; other site 231023006824 ATP binding site [chemical binding]; other site 231023006825 Q-loop/lid; other site 231023006826 ABC transporter signature motif; other site 231023006827 Walker B; other site 231023006828 D-loop; other site 231023006829 H-loop/switch region; other site 231023006830 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 231023006831 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 231023006832 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 231023006833 P loop; other site 231023006834 GTP binding site [chemical binding]; other site 231023006835 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 231023006836 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 231023006837 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 231023006838 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 231023006839 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 231023006840 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 231023006841 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 231023006842 S-adenosylmethionine binding site [chemical binding]; other site 231023006843 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 231023006844 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 231023006845 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 231023006846 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 231023006847 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 231023006848 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 231023006849 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 231023006850 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 231023006851 active site residue [active] 231023006852 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 231023006853 active site residue [active] 231023006854 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 231023006855 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 231023006856 Bacterial transcriptional repressor; Region: TetR; pfam13972 231023006857 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 231023006858 NAD(P) binding site [chemical binding]; other site 231023006859 catalytic residues [active] 231023006860 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 231023006861 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 231023006862 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 231023006863 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 231023006864 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 231023006865 active site 231023006866 (T/H)XGH motif; other site 231023006867 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 231023006868 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 231023006869 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 231023006870 DNA binding site [nucleotide binding] 231023006871 catalytic residue [active] 231023006872 H2TH interface [polypeptide binding]; other site 231023006873 putative catalytic residues [active] 231023006874 turnover-facilitating residue; other site 231023006875 intercalation triad [nucleotide binding]; other site 231023006876 8OG recognition residue [nucleotide binding]; other site 231023006877 putative reading head residues; other site 231023006878 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 231023006879 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 231023006880 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 231023006881 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 231023006882 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 231023006883 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 231023006884 putative RNA binding site [nucleotide binding]; other site 231023006885 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 231023006886 S-adenosylmethionine binding site [chemical binding]; other site 231023006887 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 231023006888 Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Poa1p_like; cd02901 231023006889 ADP-ribose binding site [chemical binding]; other site 231023006890 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 231023006891 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 231023006892 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 231023006893 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 231023006894 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 231023006895 folate binding site [chemical binding]; other site 231023006896 NADP+ binding site [chemical binding]; other site 231023006897 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 231023006898 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 231023006899 G1 box; other site 231023006900 GTP/Mg2+ binding site [chemical binding]; other site 231023006901 G2 box; other site 231023006902 Switch I region; other site 231023006903 G3 box; other site 231023006904 Switch II region; other site 231023006905 G4 box; other site 231023006906 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 231023006907 G5 box; other site 231023006908 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 231023006909 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 231023006910 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 231023006911 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023006912 dimer interface [polypeptide binding]; other site 231023006913 conserved gate region; other site 231023006914 putative PBP binding loops; other site 231023006915 ABC-ATPase subunit interface; other site 231023006916 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023006917 dimer interface [polypeptide binding]; other site 231023006918 conserved gate region; other site 231023006919 putative PBP binding loops; other site 231023006920 ABC-ATPase subunit interface; other site 231023006921 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 231023006922 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023006923 Walker A/P-loop; other site 231023006924 ATP binding site [chemical binding]; other site 231023006925 Q-loop/lid; other site 231023006926 ABC transporter signature motif; other site 231023006927 Walker B; other site 231023006928 D-loop; other site 231023006929 H-loop/switch region; other site 231023006930 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 231023006931 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023006932 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 231023006933 dimerization interface [polypeptide binding]; other site 231023006934 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 231023006935 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 231023006936 Soluble P-type ATPase [General function prediction only]; Region: COG4087 231023006937 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 231023006938 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 231023006939 DNA binding residues [nucleotide binding] 231023006940 dimer interface [polypeptide binding]; other site 231023006941 putative metal binding site [ion binding]; other site 231023006942 thymidylate synthase; Provisional; Region: thyA; PRK13821 231023006943 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 231023006944 dimerization interface [polypeptide binding]; other site 231023006945 active site 231023006946 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 231023006947 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 231023006948 NRDE protein; Region: NRDE; cl01315 231023006949 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 231023006950 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 231023006951 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 231023006952 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 231023006953 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 231023006954 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 231023006955 putative active site [active] 231023006956 Ap4A binding site [chemical binding]; other site 231023006957 nudix motif; other site 231023006958 putative metal binding site [ion binding]; other site 231023006959 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 231023006960 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 231023006961 motif II; other site 231023006962 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 231023006963 threonine dehydratase; Reviewed; Region: PRK09224 231023006964 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 231023006965 tetramer interface [polypeptide binding]; other site 231023006966 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023006967 catalytic residue [active] 231023006968 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 231023006969 putative Ile/Val binding site [chemical binding]; other site 231023006970 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 231023006971 putative Ile/Val binding site [chemical binding]; other site 231023006972 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 231023006973 tetramer (dimer of dimers) interface [polypeptide binding]; other site 231023006974 active site 231023006975 dimer interface [polypeptide binding]; other site 231023006976 SdiA-regulated; Region: SdiA-regulated; pfam06977 231023006977 SdiA-regulated; Region: SdiA-regulated; cd09971 231023006978 putative active site [active] 231023006979 SdiA-regulated; Region: SdiA-regulated; pfam06977 231023006980 SdiA-regulated; Region: SdiA-regulated; cd09971 231023006981 putative active site [active] 231023006982 putative transposase OrfB; Reviewed; Region: PHA02517 231023006983 HTH-like domain; Region: HTH_21; pfam13276 231023006984 Integrase core domain; Region: rve; pfam00665 231023006985 Integrase core domain; Region: rve_2; pfam13333 231023006986 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 231023006987 Homeodomain-like domain; Region: HTH_23; cl17451 231023006988 Helix-turn-helix domain; Region: HTH_28; pfam13518 231023006989 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 231023006990 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 231023006991 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 231023006992 FAD binding domain; Region: FAD_binding_4; pfam01565 231023006993 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 231023006994 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 231023006995 ligand binding site [chemical binding]; other site 231023006996 NAD binding site [chemical binding]; other site 231023006997 tetramer interface [polypeptide binding]; other site 231023006998 catalytic site [active] 231023006999 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 231023007000 L-serine binding site [chemical binding]; other site 231023007001 ACT domain interface; other site 231023007002 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 231023007003 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023007004 substrate binding pocket [chemical binding]; other site 231023007005 Uncharacterized conserved protein [Function unknown]; Region: COG1683 231023007006 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 231023007007 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 231023007008 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 231023007009 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 231023007010 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 231023007011 maltose O-acetyltransferase; Provisional; Region: PRK10092 231023007012 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 231023007013 active site 231023007014 substrate binding site [chemical binding]; other site 231023007015 trimer interface [polypeptide binding]; other site 231023007016 CoA binding site [chemical binding]; other site 231023007017 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 231023007018 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 231023007019 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 231023007020 active site 231023007021 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 231023007022 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 231023007023 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023007024 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 231023007025 Walker A motif; other site 231023007026 ATP binding site [chemical binding]; other site 231023007027 Walker B motif; other site 231023007028 arginine finger; other site 231023007029 Serine hydrolase; Region: Ser_hydrolase; pfam06821 231023007030 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 231023007031 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 231023007032 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 231023007033 Walker A/P-loop; other site 231023007034 ATP binding site [chemical binding]; other site 231023007035 Q-loop/lid; other site 231023007036 ABC transporter signature motif; other site 231023007037 Walker B; other site 231023007038 D-loop; other site 231023007039 H-loop/switch region; other site 231023007040 TOBE-like domain; Region: TOBE_3; pfam12857 231023007041 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 231023007042 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023007043 dimer interface [polypeptide binding]; other site 231023007044 conserved gate region; other site 231023007045 putative PBP binding loops; other site 231023007046 ABC-ATPase subunit interface; other site 231023007047 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 231023007048 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023007049 dimer interface [polypeptide binding]; other site 231023007050 conserved gate region; other site 231023007051 putative PBP binding loops; other site 231023007052 ABC-ATPase subunit interface; other site 231023007053 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 231023007054 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 231023007055 Uncharacterized small protein [Function unknown]; Region: COG5583 231023007056 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 231023007057 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 231023007058 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 231023007059 HlyD family secretion protein; Region: HlyD_3; pfam13437 231023007060 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 231023007061 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 231023007062 HlyD family secretion protein; Region: HlyD_3; pfam13437 231023007063 Transposase IS200 like; Region: Y1_Tnp; pfam01797 231023007064 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 231023007065 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023007066 dimer interface [polypeptide binding]; other site 231023007067 conserved gate region; other site 231023007068 putative PBP binding loops; other site 231023007069 ABC-ATPase subunit interface; other site 231023007070 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 231023007071 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023007072 dimer interface [polypeptide binding]; other site 231023007073 conserved gate region; other site 231023007074 putative PBP binding loops; other site 231023007075 ABC-ATPase subunit interface; other site 231023007076 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 231023007077 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023007078 Walker A/P-loop; other site 231023007079 ATP binding site [chemical binding]; other site 231023007080 Q-loop/lid; other site 231023007081 ABC transporter signature motif; other site 231023007082 Walker B; other site 231023007083 D-loop; other site 231023007084 H-loop/switch region; other site 231023007085 TOBE domain; Region: TOBE_2; pfam08402 231023007086 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 231023007087 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 231023007088 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 231023007089 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 231023007090 putative aminotransferase; Validated; Region: PRK07480 231023007091 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 231023007092 inhibitor-cofactor binding pocket; inhibition site 231023007093 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023007094 catalytic residue [active] 231023007095 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 231023007096 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 231023007097 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 231023007098 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 231023007099 N-acetylglutamate synthase; Validated; Region: PRK05279 231023007100 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 231023007101 putative feedback inhibition sensing region; other site 231023007102 putative nucleotide binding site [chemical binding]; other site 231023007103 putative substrate binding site [chemical binding]; other site 231023007104 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 231023007105 Coenzyme A binding pocket [chemical binding]; other site 231023007106 acetylornithine deacetylase; Provisional; Region: PRK05111 231023007107 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 231023007108 metal binding site [ion binding]; metal-binding site 231023007109 putative dimer interface [polypeptide binding]; other site 231023007110 Uncharacterized conserved protein [Function unknown]; Region: COG3025 231023007111 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 231023007112 putative active site; other site 231023007113 putative metal binding residues [ion binding]; other site 231023007114 signature motif; other site 231023007115 putative triphosphate binding site [ion binding]; other site 231023007116 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 231023007117 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 231023007118 putative DNA binding site [nucleotide binding]; other site 231023007119 putative Zn2+ binding site [ion binding]; other site 231023007120 AsnC family; Region: AsnC_trans_reg; pfam01037 231023007121 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 231023007122 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 231023007123 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 231023007124 Walker A motif; other site 231023007125 ATP binding site [chemical binding]; other site 231023007126 Walker B motif; other site 231023007127 conserverd hypothetical protein; Region: TIGR02448 231023007128 glycine dehydrogenase; Provisional; Region: PRK12566 231023007129 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 231023007130 tetramer interface [polypeptide binding]; other site 231023007131 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023007132 catalytic residue [active] 231023007133 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 231023007134 tetramer interface [polypeptide binding]; other site 231023007135 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023007136 catalytic residue [active] 231023007137 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 231023007138 lipoyl attachment site [posttranslational modification]; other site 231023007139 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 231023007140 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 231023007141 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 231023007142 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023007143 dimer interface [polypeptide binding]; other site 231023007144 conserved gate region; other site 231023007145 putative PBP binding loops; other site 231023007146 ABC-ATPase subunit interface; other site 231023007147 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023007148 dimer interface [polypeptide binding]; other site 231023007149 conserved gate region; other site 231023007150 putative PBP binding loops; other site 231023007151 ABC-ATPase subunit interface; other site 231023007152 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 231023007153 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 231023007154 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 231023007155 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK05714 231023007156 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 231023007157 active site 2 [active] 231023007158 active site 1 [active] 231023007159 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 231023007160 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 231023007161 proline aminopeptidase P II; Provisional; Region: PRK10879 231023007162 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 231023007163 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 231023007164 active site 231023007165 hypothetical protein; Reviewed; Region: PRK02166 231023007166 TIGR02449 family protein; Region: TIGR02449 231023007167 Cell division protein ZapA; Region: ZapA; pfam05164 231023007168 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 231023007169 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 231023007170 Uncharacterized conserved protein [Function unknown]; Region: COG2947 231023007171 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 231023007172 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 231023007173 HlyD family secretion protein; Region: HlyD_3; pfam13437 231023007174 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 231023007175 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 231023007176 Walker A/P-loop; other site 231023007177 ATP binding site [chemical binding]; other site 231023007178 Q-loop/lid; other site 231023007179 ABC transporter signature motif; other site 231023007180 Walker B; other site 231023007181 D-loop; other site 231023007182 H-loop/switch region; other site 231023007183 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023007184 Walker A/P-loop; other site 231023007185 ATP binding site [chemical binding]; other site 231023007186 Q-loop/lid; other site 231023007187 ABC transporter signature motif; other site 231023007188 Walker B; other site 231023007189 D-loop; other site 231023007190 H-loop/switch region; other site 231023007191 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 231023007192 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 231023007193 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 231023007194 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 231023007195 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 231023007196 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 231023007197 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 231023007198 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 231023007199 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 231023007200 NAD(P) binding site [chemical binding]; other site 231023007201 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 231023007202 putative active site pocket [active] 231023007203 dimerization interface [polypeptide binding]; other site 231023007204 putative catalytic residue [active] 231023007205 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 231023007206 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 231023007207 catalytic loop [active] 231023007208 iron binding site [ion binding]; other site 231023007209 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 231023007210 FAD binding pocket [chemical binding]; other site 231023007211 FAD binding motif [chemical binding]; other site 231023007212 phosphate binding motif [ion binding]; other site 231023007213 beta-alpha-beta structure motif; other site 231023007214 NAD binding pocket [chemical binding]; other site 231023007215 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 231023007216 transcription termination factor Rho; Provisional; Region: rho; PRK09376 231023007217 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 231023007218 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 231023007219 RNA binding site [nucleotide binding]; other site 231023007220 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 231023007221 multimer interface [polypeptide binding]; other site 231023007222 Walker A motif; other site 231023007223 ATP binding site [chemical binding]; other site 231023007224 Walker B motif; other site 231023007225 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 231023007226 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 231023007227 catalytic residues [active] 231023007228 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 231023007229 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 231023007230 polyphosphate kinase; Provisional; Region: PRK05443 231023007231 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 231023007232 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 231023007233 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 231023007234 putative active site [active] 231023007235 catalytic site [active] 231023007236 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 231023007237 putative domain interface [polypeptide binding]; other site 231023007238 putative active site [active] 231023007239 catalytic site [active] 231023007240 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 231023007241 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 231023007242 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 231023007243 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 231023007244 conserved cys residue [active] 231023007245 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1671 231023007246 adenylate cyclase; Provisional; Region: cyaA; PRK09450 231023007247 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 231023007248 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 231023007249 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 231023007250 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 231023007251 frataxin-like protein; Provisional; Region: cyaY; PRK00446 231023007252 putative iron binding site [ion binding]; other site 231023007253 diaminopimelate decarboxylase; Region: lysA; TIGR01048 231023007254 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 231023007255 active site 231023007256 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 231023007257 substrate binding site [chemical binding]; other site 231023007258 catalytic residues [active] 231023007259 dimer interface [polypeptide binding]; other site 231023007260 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 231023007261 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 231023007262 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 231023007263 Protein of unknown function, DUF484; Region: DUF484; cl17449 231023007264 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 231023007265 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 231023007266 active site 231023007267 DNA binding site [nucleotide binding] 231023007268 Int/Topo IB signature motif; other site 231023007269 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 231023007270 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 231023007271 motif II; other site 231023007272 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 231023007273 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 231023007274 Nitrogen regulatory protein P-II; Region: P-II; smart00938 231023007275 Membrane fusogenic activity; Region: BMFP; pfam04380 231023007276 Domain of unknown function (DUF4034); Region: DUF4034; pfam13226 231023007277 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 231023007278 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 231023007279 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 231023007280 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 231023007281 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 231023007282 Response regulator receiver domain; Region: Response_reg; pfam00072 231023007283 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023007284 active site 231023007285 phosphorylation site [posttranslational modification] 231023007286 intermolecular recognition site; other site 231023007287 dimerization interface [polypeptide binding]; other site 231023007288 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 231023007289 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 231023007290 DNA binding site [nucleotide binding] 231023007291 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 231023007292 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023007293 active site 231023007294 phosphorylation site [posttranslational modification] 231023007295 intermolecular recognition site; other site 231023007296 dimerization interface [polypeptide binding]; other site 231023007297 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 231023007298 DNA binding residues [nucleotide binding] 231023007299 dimerization interface [polypeptide binding]; other site 231023007300 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 231023007301 active site 231023007302 substrate binding site [chemical binding]; other site 231023007303 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 231023007304 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 231023007305 AAA ATPase domain; Region: AAA_16; pfam13191 231023007306 Predicted ATPase [General function prediction only]; Region: COG3899 231023007307 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 231023007308 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 231023007309 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023007310 dimer interface [polypeptide binding]; other site 231023007311 phosphorylation site [posttranslational modification] 231023007312 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023007313 ATP binding site [chemical binding]; other site 231023007314 Mg2+ binding site [ion binding]; other site 231023007315 G-X-G motif; other site 231023007316 Isochorismatase family; Region: Isochorismatase; pfam00857 231023007317 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 231023007318 catalytic triad [active] 231023007319 dimer interface [polypeptide binding]; other site 231023007320 conserved cis-peptide bond; other site 231023007321 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 231023007322 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023007323 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023007324 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 231023007325 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 231023007326 conserved cys residue [active] 231023007327 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023007328 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023007329 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 231023007330 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 231023007331 TrkA-N domain; Region: TrkA_N; pfam02254 231023007332 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 231023007333 Isochorismatase family; Region: Isochorismatase; pfam00857 231023007334 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 231023007335 catalytic triad [active] 231023007336 dimer interface [polypeptide binding]; other site 231023007337 conserved cis-peptide bond; other site 231023007338 LysR family transcriptional regulator; Provisional; Region: PRK14997 231023007339 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023007340 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 231023007341 putative effector binding pocket; other site 231023007342 putative dimerization interface [polypeptide binding]; other site 231023007343 outer membrane porin, OprD family; Region: OprD; pfam03573 231023007344 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 231023007345 Transmembrane secretion effector; Region: MFS_3; pfam05977 231023007346 putative substrate translocation pore; other site 231023007347 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 231023007348 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 231023007349 active site 231023007350 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 231023007351 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 231023007352 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 231023007353 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 231023007354 Isochorismatase family; Region: Isochorismatase; pfam00857 231023007355 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 231023007356 catalytic triad [active] 231023007357 dimer interface [polypeptide binding]; other site 231023007358 conserved cis-peptide bond; other site 231023007359 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 231023007360 Mechanosensitive ion channel; Region: MS_channel; pfam00924 231023007361 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 231023007362 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 231023007363 ligand binding site [chemical binding]; other site 231023007364 flexible hinge region; other site 231023007365 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 231023007366 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 231023007367 aldehyde dehydrogenase family 7 member; Region: PLN02315 231023007368 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 231023007369 tetrameric interface [polypeptide binding]; other site 231023007370 NAD binding site [chemical binding]; other site 231023007371 catalytic residues [active] 231023007372 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 231023007373 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023007374 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 231023007375 dimerization interface [polypeptide binding]; other site 231023007376 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 231023007377 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 231023007378 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 231023007379 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023007380 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 231023007381 dimerization interface [polypeptide binding]; other site 231023007382 multidrug efflux protein NorA; Provisional; Region: PRK00187 231023007383 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 231023007384 cation binding site [ion binding]; other site 231023007385 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 231023007386 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023007387 metal binding site [ion binding]; metal-binding site 231023007388 active site 231023007389 I-site; other site 231023007390 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 231023007391 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 231023007392 Part of AAA domain; Region: AAA_19; pfam13245 231023007393 Family description; Region: UvrD_C_2; pfam13538 231023007394 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 231023007395 active site 231023007396 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 231023007397 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 231023007398 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 231023007399 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 231023007400 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 231023007401 non-specific DNA binding site [nucleotide binding]; other site 231023007402 salt bridge; other site 231023007403 sequence-specific DNA binding site [nucleotide binding]; other site 231023007404 Cupin domain; Region: Cupin_2; pfam07883 231023007405 alanine racemase; Reviewed; Region: dadX; PRK03646 231023007406 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 231023007407 active site 231023007408 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 231023007409 substrate binding site [chemical binding]; other site 231023007410 catalytic residues [active] 231023007411 dimer interface [polypeptide binding]; other site 231023007412 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 231023007413 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 231023007414 hydroxyglutarate oxidase; Provisional; Region: PRK11728 231023007415 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 231023007416 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 231023007417 putative DNA binding site [nucleotide binding]; other site 231023007418 putative Zn2+ binding site [ion binding]; other site 231023007419 AsnC family; Region: AsnC_trans_reg; pfam01037 231023007420 Flagellin N-methylase; Region: FliB; pfam03692 231023007421 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 231023007422 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 231023007423 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 231023007424 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 231023007425 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023007426 DNA-binding site [nucleotide binding]; DNA binding site 231023007427 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 231023007428 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023007429 homodimer interface [polypeptide binding]; other site 231023007430 catalytic residue [active] 231023007431 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 231023007432 PLD-like domain; Region: PLDc_2; pfam13091 231023007433 putative active site [active] 231023007434 catalytic site [active] 231023007435 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 231023007436 PLD-like domain; Region: PLDc_2; pfam13091 231023007437 putative active site [active] 231023007438 catalytic site [active] 231023007439 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 231023007440 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 231023007441 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 231023007442 NAD(P) binding site [chemical binding]; other site 231023007443 catalytic residues [active] 231023007444 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 231023007445 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cl00700 231023007446 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 231023007447 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 231023007448 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 231023007449 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 231023007450 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 231023007451 peptide binding site [polypeptide binding]; other site 231023007452 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 231023007453 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 231023007454 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 231023007455 active site 231023007456 catalytic residues [active] 231023007457 DNA binding site [nucleotide binding] 231023007458 Int/Topo IB signature motif; other site 231023007459 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 231023007460 active site 231023007461 catalytic residues [active] 231023007462 DNA binding site [nucleotide binding] 231023007463 Int/Topo IB signature motif; other site 231023007464 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 231023007465 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 231023007466 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 231023007467 non-specific DNA binding site [nucleotide binding]; other site 231023007468 salt bridge; other site 231023007469 sequence-specific DNA binding site [nucleotide binding]; other site 231023007470 Transposase; Region: HTH_Tnp_1; pfam01527 231023007471 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 231023007472 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 231023007473 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 231023007474 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 231023007475 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 231023007476 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 231023007477 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 231023007478 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 231023007479 Predicted acyl esterases [General function prediction only]; Region: COG2936 231023007480 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 231023007481 Predicted membrane protein [Function unknown]; Region: COG1288 231023007482 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023007483 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023007484 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 231023007485 putative dimerization interface [polypeptide binding]; other site 231023007486 outer membrane porin, OprD family; Region: OprD; pfam03573 231023007487 putative metal dependent hydrolase; Provisional; Region: PRK11598 231023007488 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 231023007489 Sulfatase; Region: Sulfatase; pfam00884 231023007490 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 231023007491 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 231023007492 hypothetical protein; Provisional; Region: PRK09272 231023007493 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 231023007494 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 231023007495 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023007496 active site 231023007497 phosphorylation site [posttranslational modification] 231023007498 intermolecular recognition site; other site 231023007499 dimerization interface [polypeptide binding]; other site 231023007500 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 231023007501 DNA binding site [nucleotide binding] 231023007502 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 231023007503 HAMP domain; Region: HAMP; pfam00672 231023007504 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023007505 dimer interface [polypeptide binding]; other site 231023007506 phosphorylation site [posttranslational modification] 231023007507 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023007508 ATP binding site [chemical binding]; other site 231023007509 Mg2+ binding site [ion binding]; other site 231023007510 G-X-G motif; other site 231023007511 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 231023007512 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 231023007513 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 231023007514 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 231023007515 Ligand binding site; other site 231023007516 Putative Catalytic site; other site 231023007517 DXD motif; other site 231023007518 Membrane protein of unknown function; Region: DUF360; pfam04020 231023007519 Predicted membrane protein [Function unknown]; Region: COG2246 231023007520 GtrA-like protein; Region: GtrA; pfam04138 231023007521 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023007522 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023007523 LysR substrate binding domain; Region: LysR_substrate; pfam03466 231023007524 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 231023007525 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 231023007526 50S ribosomal protein L12P; Reviewed; Region: rpl12p; PRK06402 231023007527 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 231023007528 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 231023007529 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 231023007530 motif II; other site 231023007531 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 231023007532 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 231023007533 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 231023007534 HlyD family secretion protein; Region: HlyD_3; pfam13437 231023007535 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 231023007536 outer membrane porin, OprD family; Region: OprD; pfam03573 231023007537 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 231023007538 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023007539 active site 231023007540 phosphorylation site [posttranslational modification] 231023007541 intermolecular recognition site; other site 231023007542 dimerization interface [polypeptide binding]; other site 231023007543 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 231023007544 DNA binding site [nucleotide binding] 231023007545 hypothetical protein; Reviewed; Region: PRK00024 231023007546 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 231023007547 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 231023007548 Flavoprotein; Region: Flavoprotein; pfam02441 231023007549 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 231023007550 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 231023007551 trimer interface [polypeptide binding]; other site 231023007552 active site 231023007553 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 231023007554 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 231023007555 active site 231023007556 substrate binding site [chemical binding]; other site 231023007557 metal binding site [ion binding]; metal-binding site 231023007558 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 231023007559 feedback inhibition sensing region; other site 231023007560 homohexameric interface [polypeptide binding]; other site 231023007561 nucleotide binding site [chemical binding]; other site 231023007562 N-acetyl-L-glutamate binding site [chemical binding]; other site 231023007563 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 231023007564 active site 231023007565 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 231023007566 putative active site [active] 231023007567 putative catalytic site [active] 231023007568 putative DNA binding site [nucleotide binding]; other site 231023007569 putative phosphate binding site [ion binding]; other site 231023007570 metal binding site A [ion binding]; metal-binding site 231023007571 putative AP binding site [nucleotide binding]; other site 231023007572 putative metal binding site B [ion binding]; other site 231023007573 Tic20-like protein; Region: Tic20; pfam09685 231023007574 ribonuclease PH; Reviewed; Region: rph; PRK00173 231023007575 Ribonuclease PH; Region: RNase_PH_bact; cd11362 231023007576 hexamer interface [polypeptide binding]; other site 231023007577 active site 231023007578 hypothetical protein; Provisional; Region: PRK11820 231023007579 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 231023007580 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 231023007581 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 231023007582 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 231023007583 catalytic site [active] 231023007584 G-X2-G-X-G-K; other site 231023007585 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 231023007586 Peptidase C26; Region: Peptidase_C26; pfam07722 231023007587 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 231023007588 catalytic triad [active] 231023007589 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 231023007590 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 231023007591 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023007592 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023007593 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 231023007594 dimerization interface [polypeptide binding]; other site 231023007595 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 231023007596 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 231023007597 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 231023007598 Zn2+ binding site [ion binding]; other site 231023007599 Mg2+ binding site [ion binding]; other site 231023007600 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 231023007601 synthetase active site [active] 231023007602 NTP binding site [chemical binding]; other site 231023007603 metal binding site [ion binding]; metal-binding site 231023007604 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 231023007605 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 231023007606 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 231023007607 homotrimer interaction site [polypeptide binding]; other site 231023007608 putative active site [active] 231023007609 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 231023007610 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 231023007611 putative NAD(P) binding site [chemical binding]; other site 231023007612 tonB-system energizer ExbB; Region: exbB; TIGR02797 231023007613 biopolymer transport protein ExbD; Provisional; Region: PRK11267 231023007614 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 231023007615 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 231023007616 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 231023007617 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 231023007618 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023007619 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 231023007620 dimerization interface [polypeptide binding]; other site 231023007621 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 231023007622 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 231023007623 generic binding surface II; other site 231023007624 ssDNA binding site; other site 231023007625 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 231023007626 ATP binding site [chemical binding]; other site 231023007627 putative Mg++ binding site [ion binding]; other site 231023007628 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 231023007629 nucleotide binding region [chemical binding]; other site 231023007630 ATP-binding site [chemical binding]; other site 231023007631 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 231023007632 putative deacylase active site [active] 231023007633 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 231023007634 SCP-2 sterol transfer family; Region: SCP2; pfam02036 231023007635 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 231023007636 IHF dimer interface [polypeptide binding]; other site 231023007637 IHF - DNA interface [nucleotide binding]; other site 231023007638 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 231023007639 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 231023007640 Rubredoxin [Energy production and conversion]; Region: COG1773 231023007641 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 231023007642 iron binding site [ion binding]; other site 231023007643 Chorismate lyase; Region: Chor_lyase; cl01230 231023007644 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 231023007645 UbiA prenyltransferase family; Region: UbiA; pfam01040 231023007646 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 231023007647 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 231023007648 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 231023007649 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023007650 active site 231023007651 phosphorylation site [posttranslational modification] 231023007652 intermolecular recognition site; other site 231023007653 dimerization interface [polypeptide binding]; other site 231023007654 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 231023007655 DNA binding site [nucleotide binding] 231023007656 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 231023007657 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 231023007658 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023007659 putative active site [active] 231023007660 heme pocket [chemical binding]; other site 231023007661 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023007662 dimer interface [polypeptide binding]; other site 231023007663 phosphorylation site [posttranslational modification] 231023007664 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023007665 ATP binding site [chemical binding]; other site 231023007666 Mg2+ binding site [ion binding]; other site 231023007667 G-X-G motif; other site 231023007668 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 231023007669 Domain of unknown function DUF21; Region: DUF21; pfam01595 231023007670 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 231023007671 Transporter associated domain; Region: CorC_HlyC; smart01091 231023007672 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 231023007673 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 231023007674 Peptidase family M23; Region: Peptidase_M23; pfam01551 231023007675 Response regulator receiver domain; Region: Response_reg; pfam00072 231023007676 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023007677 active site 231023007678 phosphorylation site [posttranslational modification] 231023007679 intermolecular recognition site; other site 231023007680 dimerization interface [polypeptide binding]; other site 231023007681 transcriptional regulator PhoU; Provisional; Region: PRK11115 231023007682 PhoU domain; Region: PhoU; pfam01895 231023007683 PhoU domain; Region: PhoU; pfam01895 231023007684 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 231023007685 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 231023007686 Walker A/P-loop; other site 231023007687 ATP binding site [chemical binding]; other site 231023007688 Q-loop/lid; other site 231023007689 ABC transporter signature motif; other site 231023007690 Walker B; other site 231023007691 D-loop; other site 231023007692 H-loop/switch region; other site 231023007693 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 231023007694 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 231023007695 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023007696 dimer interface [polypeptide binding]; other site 231023007697 conserved gate region; other site 231023007698 putative PBP binding loops; other site 231023007699 ABC-ATPase subunit interface; other site 231023007700 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 231023007701 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023007702 dimer interface [polypeptide binding]; other site 231023007703 conserved gate region; other site 231023007704 putative PBP binding loops; other site 231023007705 ABC-ATPase subunit interface; other site 231023007706 phosphate binding protein; Region: ptsS_2; TIGR02136 231023007707 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 231023007708 metabolite-proton symporter; Region: 2A0106; TIGR00883 231023007709 putative substrate translocation pore; other site 231023007710 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 231023007711 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 231023007712 active site 231023007713 phosphate binding residues; other site 231023007714 catalytic residues [active] 231023007715 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 231023007716 Predicted membrane protein [Function unknown]; Region: COG2261 231023007717 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 231023007718 ATP-grasp domain; Region: ATP-grasp; pfam02222 231023007719 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 231023007720 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 231023007721 active site 231023007722 cell density-dependent motility repressor; Provisional; Region: PRK10082 231023007723 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023007724 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 231023007725 dimerization interface [polypeptide binding]; other site 231023007726 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 231023007727 Aspartase; Region: Aspartase; cd01357 231023007728 active sites [active] 231023007729 tetramer interface [polypeptide binding]; other site 231023007730 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 231023007731 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 231023007732 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 231023007733 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 231023007734 active site 231023007735 Zn binding site [ion binding]; other site 231023007736 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 231023007737 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 231023007738 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 231023007739 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023007740 DNA-binding site [nucleotide binding]; DNA binding site 231023007741 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 231023007742 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023007743 homodimer interface [polypeptide binding]; other site 231023007744 catalytic residue [active] 231023007745 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 231023007746 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 231023007747 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 231023007748 Coenzyme A binding pocket [chemical binding]; other site 231023007749 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 231023007750 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 231023007751 pyruvate carboxylase subunit B; Validated; Region: PRK09282 231023007752 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 231023007753 active site 231023007754 catalytic residues [active] 231023007755 metal binding site [ion binding]; metal-binding site 231023007756 homodimer binding site [polypeptide binding]; other site 231023007757 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 231023007758 carboxyltransferase (CT) interaction site; other site 231023007759 biotinylation site [posttranslational modification]; other site 231023007760 pyruvate carboxylase subunit A; Validated; Region: PRK07178 231023007761 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 231023007762 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 231023007763 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 231023007764 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023007765 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023007766 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 231023007767 putative dimerization interface [polypeptide binding]; other site 231023007768 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 231023007769 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 231023007770 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 231023007771 putative active site [active] 231023007772 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 231023007773 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 231023007774 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 231023007775 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 231023007776 Part of AAA domain; Region: AAA_19; pfam13245 231023007777 Family description; Region: UvrD_C_2; pfam13538 231023007778 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 231023007779 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 231023007780 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 231023007781 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 231023007782 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 231023007783 pyridoxamine kinase; Validated; Region: PRK05756 231023007784 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 231023007785 pyridoxal binding site [chemical binding]; other site 231023007786 dimer interface [polypeptide binding]; other site 231023007787 ATP binding site [chemical binding]; other site 231023007788 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 231023007789 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 231023007790 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 231023007791 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 231023007792 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 231023007793 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 231023007794 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 231023007795 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 231023007796 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 231023007797 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 231023007798 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 231023007799 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 231023007800 putative active site [active] 231023007801 catalytic site [active] 231023007802 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 231023007803 putative active site [active] 231023007804 catalytic site [active] 231023007805 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 231023007806 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 231023007807 S-adenosylmethionine binding site [chemical binding]; other site 231023007808 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06115 231023007809 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 231023007810 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 231023007811 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 231023007812 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 231023007813 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 231023007814 PYR/PP interface [polypeptide binding]; other site 231023007815 dimer interface [polypeptide binding]; other site 231023007816 TPP binding site [chemical binding]; other site 231023007817 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 231023007818 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 231023007819 TPP-binding site [chemical binding]; other site 231023007820 dimer interface [polypeptide binding]; other site 231023007821 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 231023007822 putative substrate translocation pore; other site 231023007823 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 231023007824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 231023007825 NAD(P) binding site [chemical binding]; other site 231023007826 active site 231023007827 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 231023007828 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023007829 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 231023007830 dimerization interface [polypeptide binding]; other site 231023007831 substrate binding pocket [chemical binding]; other site 231023007832 Transposase; Region: HTH_Tnp_1; cl17663 231023007833 Sel1-like repeats; Region: SEL1; smart00671 231023007834 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 231023007835 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 231023007836 Sel1-like repeats; Region: SEL1; smart00671 231023007837 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 231023007838 Sel1-like repeats; Region: SEL1; smart00671 231023007839 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 231023007840 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 231023007841 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; cl00251 231023007842 Preprotein binding site; other site 231023007843 SecA binding site; other site 231023007844 septation ring formation regulator EzrA; Provisional; Region: PRK04778 231023007845 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 231023007846 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 231023007847 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 231023007848 glutaminase active site [active] 231023007849 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 231023007850 dimer interface [polypeptide binding]; other site 231023007851 active site 231023007852 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 231023007853 dimer interface [polypeptide binding]; other site 231023007854 active site 231023007855 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 231023007856 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 231023007857 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 231023007858 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 231023007859 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 231023007860 Substrate binding site; other site 231023007861 Mg++ binding site; other site 231023007862 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 231023007863 active site 231023007864 substrate binding site [chemical binding]; other site 231023007865 CoA binding site [chemical binding]; other site 231023007866 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 231023007867 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 231023007868 gamma subunit interface [polypeptide binding]; other site 231023007869 epsilon subunit interface [polypeptide binding]; other site 231023007870 LBP interface [polypeptide binding]; other site 231023007871 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 231023007872 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 231023007873 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 231023007874 alpha subunit interaction interface [polypeptide binding]; other site 231023007875 Walker A motif; other site 231023007876 ATP binding site [chemical binding]; other site 231023007877 Walker B motif; other site 231023007878 inhibitor binding site; inhibition site 231023007879 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 231023007880 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 231023007881 core domain interface [polypeptide binding]; other site 231023007882 delta subunit interface [polypeptide binding]; other site 231023007883 epsilon subunit interface [polypeptide binding]; other site 231023007884 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 231023007885 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 231023007886 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 231023007887 beta subunit interaction interface [polypeptide binding]; other site 231023007888 Walker A motif; other site 231023007889 ATP binding site [chemical binding]; other site 231023007890 Walker B motif; other site 231023007891 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 231023007892 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 231023007893 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 231023007894 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 231023007895 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 231023007896 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 231023007897 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 231023007898 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 231023007899 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 231023007900 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 231023007901 ParB-like nuclease domain; Region: ParBc; pfam02195 231023007902 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 231023007903 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 231023007904 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 231023007905 Magnesium ion binding site [ion binding]; other site 231023007906 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 231023007907 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 231023007908 S-adenosylmethionine binding site [chemical binding]; other site 231023007909 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 231023007910 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 231023007911 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 231023007912 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 231023007913 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 231023007914 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 231023007915 trmE is a tRNA modification GTPase; Region: trmE; cd04164 231023007916 G1 box; other site 231023007917 GTP/Mg2+ binding site [chemical binding]; other site 231023007918 Switch I region; other site 231023007919 G2 box; other site 231023007920 Switch II region; other site 231023007921 G3 box; other site 231023007922 G4 box; other site 231023007923 G5 box; other site 231023007924 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 231023007925 membrane protein insertase; Provisional; Region: PRK01318 231023007926 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 231023007927 ribonuclease P; Reviewed; Region: rnpA; PRK00396 231023007928 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 231023007929 DnaA N-terminal domain; Region: DnaA_N; pfam11638 231023007930 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023007931 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 231023007932 Walker A motif; other site 231023007933 ATP binding site [chemical binding]; other site 231023007934 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 231023007935 Walker B motif; other site 231023007936 arginine finger; other site 231023007937 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 231023007938 DnaA box-binding interface [nucleotide binding]; other site 231023007939 DNA polymerase III subunit beta; Validated; Region: PRK05643 231023007940 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 231023007941 putative DNA binding surface [nucleotide binding]; other site 231023007942 dimer interface [polypeptide binding]; other site 231023007943 beta-clamp/clamp loader binding surface; other site 231023007944 beta-clamp/translesion DNA polymerase binding surface; other site 231023007945 recombination protein F; Reviewed; Region: recF; PRK00064 231023007946 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023007947 Walker A/P-loop; other site 231023007948 ATP binding site [chemical binding]; other site 231023007949 Q-loop/lid; other site 231023007950 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023007951 ABC transporter signature motif; other site 231023007952 Walker B; other site 231023007953 D-loop; other site 231023007954 H-loop/switch region; other site 231023007955 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 231023007956 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023007957 Mg2+ binding site [ion binding]; other site 231023007958 G-X-G motif; other site 231023007959 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 231023007960 anchoring element; other site 231023007961 dimer interface [polypeptide binding]; other site 231023007962 ATP binding site [chemical binding]; other site 231023007963 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 231023007964 active site 231023007965 putative metal-binding site [ion binding]; other site 231023007966 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 231023007967 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 231023007968 PAS fold; Region: PAS_4; pfam08448 231023007969 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023007970 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 231023007971 Walker A motif; other site 231023007972 ATP binding site [chemical binding]; other site 231023007973 Walker B motif; other site 231023007974 arginine finger; other site 231023007975 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 231023007976 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 231023007977 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 231023007978 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 231023007979 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023007980 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023007981 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 231023007982 dimerization interface [polypeptide binding]; other site 231023007983 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 231023007984 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 231023007985 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 231023007986 putative substrate translocation pore; other site 231023007987 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 231023007988 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 231023007989 putative acyl-acceptor binding pocket; other site 231023007990 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 231023007991 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 231023007992 active site 231023007993 motif I; other site 231023007994 motif II; other site 231023007995 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 231023007996 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 231023007997 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 231023007998 dimer interface [polypeptide binding]; other site 231023007999 motif 1; other site 231023008000 active site 231023008001 motif 2; other site 231023008002 motif 3; other site 231023008003 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 231023008004 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 231023008005 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 231023008006 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 231023008007 putative acyl-acceptor binding pocket; other site 231023008008 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 231023008009 TPR motif; other site 231023008010 TPR repeat; Region: TPR_11; pfam13414 231023008011 binding surface 231023008012 K+ potassium transporter; Region: K_trans; cl15781 231023008013 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 231023008014 TrkA-N domain; Region: TrkA_N; pfam02254 231023008015 TrkA-C domain; Region: TrkA_C; pfam02080 231023008016 TrkA-N domain; Region: TrkA_N; pfam02254 231023008017 TrkA-C domain; Region: TrkA_C; pfam02080 231023008018 16S rRNA methyltransferase B; Provisional; Region: PRK10901 231023008019 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 231023008020 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 231023008021 S-adenosylmethionine binding site [chemical binding]; other site 231023008022 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 231023008023 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 231023008024 putative active site [active] 231023008025 substrate binding site [chemical binding]; other site 231023008026 putative cosubstrate binding site; other site 231023008027 catalytic site [active] 231023008028 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 231023008029 substrate binding site [chemical binding]; other site 231023008030 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 231023008031 active site 231023008032 catalytic residues [active] 231023008033 metal binding site [ion binding]; metal-binding site 231023008034 DNA protecting protein DprA; Region: dprA; TIGR00732 231023008035 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 231023008036 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 231023008037 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 231023008038 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 231023008039 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 231023008040 NADP binding site [chemical binding]; other site 231023008041 dimer interface [polypeptide binding]; other site 231023008042 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 231023008043 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 231023008044 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 231023008045 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 231023008046 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 231023008047 shikimate binding site; other site 231023008048 NAD(P) binding site [chemical binding]; other site 231023008049 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 231023008050 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 231023008051 Sulfate transporter family; Region: Sulfate_transp; pfam00916 231023008052 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 231023008053 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 231023008054 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 231023008055 Sulfatase; Region: Sulfatase; cl17466 231023008056 choline-sulfatase; Region: chol_sulfatase; TIGR03417 231023008057 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 231023008058 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 231023008059 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023008060 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 231023008061 dimerization interface [polypeptide binding]; other site 231023008062 substrate binding pocket [chemical binding]; other site 231023008063 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 231023008064 NADH(P)-binding; Region: NAD_binding_10; pfam13460 231023008065 NAD(P) binding site [chemical binding]; other site 231023008066 active site 231023008067 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 231023008068 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 231023008069 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 231023008070 substrate binding site [chemical binding]; other site 231023008071 active site 231023008072 catalytic residues [active] 231023008073 heterodimer interface [polypeptide binding]; other site 231023008074 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 231023008075 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 231023008076 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023008077 catalytic residue [active] 231023008078 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 231023008079 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023008080 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 231023008081 dimerization interface [polypeptide binding]; other site 231023008082 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 231023008083 Dodecin; Region: Dodecin; pfam07311 231023008084 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 231023008085 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 231023008086 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 231023008087 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 231023008088 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 231023008089 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 231023008090 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 231023008091 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 231023008092 Eukaryotic phosphomannomutase; Region: PMM; cl17107 231023008093 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 231023008094 motif II; other site 231023008095 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 231023008096 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 231023008097 trimer interface [polypeptide binding]; other site 231023008098 putative metal binding site [ion binding]; other site 231023008099 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 231023008100 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 231023008101 active site 231023008102 Zn binding site [ion binding]; other site 231023008103 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 231023008104 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 231023008105 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 231023008106 Zn binding site [ion binding]; other site 231023008107 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 231023008108 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 231023008109 FeS/SAM binding site; other site 231023008110 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 231023008111 active site clefts [active] 231023008112 zinc binding site [ion binding]; other site 231023008113 dimer interface [polypeptide binding]; other site 231023008114 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 231023008115 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 231023008116 Sulfate transporter family; Region: Sulfate_transp; pfam00916 231023008117 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 231023008118 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 231023008119 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 231023008120 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 231023008121 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 231023008122 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 231023008123 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 231023008124 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 231023008125 Subunit I/III interface [polypeptide binding]; other site 231023008126 D-pathway; other site 231023008127 Subunit I/VIIc interface [polypeptide binding]; other site 231023008128 Subunit I/IV interface [polypeptide binding]; other site 231023008129 Subunit I/II interface [polypeptide binding]; other site 231023008130 Low-spin heme (heme a) binding site [chemical binding]; other site 231023008131 Subunit I/VIIa interface [polypeptide binding]; other site 231023008132 Subunit I/VIa interface [polypeptide binding]; other site 231023008133 Dimer interface; other site 231023008134 Putative water exit pathway; other site 231023008135 Binuclear center (heme a3/CuB) [ion binding]; other site 231023008136 K-pathway; other site 231023008137 Subunit I/Vb interface [polypeptide binding]; other site 231023008138 Putative proton exit pathway; other site 231023008139 Subunit I/VIb interface; other site 231023008140 Subunit I/VIc interface [polypeptide binding]; other site 231023008141 Electron transfer pathway; other site 231023008142 Subunit I/VIIIb interface [polypeptide binding]; other site 231023008143 Subunit I/VIIb interface [polypeptide binding]; other site 231023008144 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 231023008145 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 231023008146 Subunit III/VIIa interface [polypeptide binding]; other site 231023008147 Phospholipid binding site [chemical binding]; other site 231023008148 Subunit I/III interface [polypeptide binding]; other site 231023008149 Subunit III/VIb interface [polypeptide binding]; other site 231023008150 Subunit III/VIa interface; other site 231023008151 Subunit III/Vb interface [polypeptide binding]; other site 231023008152 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 231023008153 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 231023008154 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 231023008155 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 231023008156 UbiA prenyltransferase family; Region: UbiA; pfam01040 231023008157 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 231023008158 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 231023008159 Cu(I) binding site [ion binding]; other site 231023008160 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 231023008161 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 231023008162 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023008163 dimer interface [polypeptide binding]; other site 231023008164 conserved gate region; other site 231023008165 ABC-ATPase subunit interface; other site 231023008166 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 231023008167 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 231023008168 Walker A/P-loop; other site 231023008169 ATP binding site [chemical binding]; other site 231023008170 Q-loop/lid; other site 231023008171 ABC transporter signature motif; other site 231023008172 Walker B; other site 231023008173 D-loop; other site 231023008174 H-loop/switch region; other site 231023008175 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 231023008176 hydroperoxidase II; Provisional; Region: katE; PRK11249 231023008177 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 231023008178 tetramer interface [polypeptide binding]; other site 231023008179 heme binding pocket [chemical binding]; other site 231023008180 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 231023008181 domain interactions; other site 231023008182 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 231023008183 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 231023008184 ABC-ATPase subunit interface; other site 231023008185 dimer interface [polypeptide binding]; other site 231023008186 putative PBP binding regions; other site 231023008187 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 231023008188 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 231023008189 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 231023008190 metal binding site 2 [ion binding]; metal-binding site 231023008191 putative DNA binding helix; other site 231023008192 metal binding site 1 [ion binding]; metal-binding site 231023008193 dimer interface [polypeptide binding]; other site 231023008194 structural Zn2+ binding site [ion binding]; other site 231023008195 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 231023008196 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 231023008197 metal binding site [ion binding]; metal-binding site 231023008198 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 231023008199 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 231023008200 putative active site [active] 231023008201 putative substrate binding site [chemical binding]; other site 231023008202 ATP binding site [chemical binding]; other site 231023008203 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 231023008204 DNA polymerase I; Provisional; Region: PRK05755 231023008205 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 231023008206 active site 231023008207 metal binding site 1 [ion binding]; metal-binding site 231023008208 putative 5' ssDNA interaction site; other site 231023008209 metal binding site 3; metal-binding site 231023008210 metal binding site 2 [ion binding]; metal-binding site 231023008211 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 231023008212 putative DNA binding site [nucleotide binding]; other site 231023008213 putative metal binding site [ion binding]; other site 231023008214 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 231023008215 active site 231023008216 catalytic site [active] 231023008217 substrate binding site [chemical binding]; other site 231023008218 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 231023008219 active site 231023008220 DNA binding site [nucleotide binding] 231023008221 catalytic site [active] 231023008222 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 231023008223 G1 box; other site 231023008224 GTP/Mg2+ binding site [chemical binding]; other site 231023008225 Switch I region; other site 231023008226 G2 box; other site 231023008227 G3 box; other site 231023008228 Switch II region; other site 231023008229 G4 box; other site 231023008230 G5 box; other site 231023008231 Cytochrome c; Region: Cytochrom_C; cl11414 231023008232 Cytochrome c553 [Energy production and conversion]; Region: COG2863 231023008233 Cytochrome c; Region: Cytochrom_C; cl11414 231023008234 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 231023008235 catalytic residues [active] 231023008236 hinge region; other site 231023008237 alpha helical domain; other site 231023008238 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 231023008239 putative catalytic site [active] 231023008240 putative metal binding site [ion binding]; other site 231023008241 putative phosphate binding site [ion binding]; other site 231023008242 putative catalytic site [active] 231023008243 putative phosphate binding site [ion binding]; other site 231023008244 putative metal binding site [ion binding]; other site 231023008245 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 231023008246 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023008247 metal binding site [ion binding]; metal-binding site 231023008248 active site 231023008249 I-site; other site 231023008250 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 231023008251 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 231023008252 amidase catalytic site [active] 231023008253 Zn binding residues [ion binding]; other site 231023008254 substrate binding site [chemical binding]; other site 231023008255 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 231023008256 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 231023008257 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 231023008258 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 231023008259 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023008260 dimerization interface [polypeptide binding]; other site 231023008261 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 231023008262 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023008263 dimer interface [polypeptide binding]; other site 231023008264 phosphorylation site [posttranslational modification] 231023008265 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023008266 ATP binding site [chemical binding]; other site 231023008267 Mg2+ binding site [ion binding]; other site 231023008268 G-X-G motif; other site 231023008269 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 231023008270 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023008271 active site 231023008272 phosphorylation site [posttranslational modification] 231023008273 intermolecular recognition site; other site 231023008274 dimerization interface [polypeptide binding]; other site 231023008275 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023008276 Walker A motif; other site 231023008277 ATP binding site [chemical binding]; other site 231023008278 Walker B motif; other site 231023008279 arginine finger; other site 231023008280 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 231023008281 BON domain; Region: BON; pfam04972 231023008282 BON domain; Region: BON; pfam04972 231023008283 BON domain; Region: BON; pfam04972 231023008284 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; pfam08816 231023008285 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 231023008286 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 231023008287 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 231023008288 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 231023008289 Protein of unknown function (DUF330); Region: DUF330; cl01135 231023008290 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 231023008291 mce related protein; Region: MCE; pfam02470 231023008292 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 231023008293 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023008294 Walker A/P-loop; other site 231023008295 ATP binding site [chemical binding]; other site 231023008296 Q-loop/lid; other site 231023008297 ABC transporter signature motif; other site 231023008298 Walker B; other site 231023008299 D-loop; other site 231023008300 H-loop/switch region; other site 231023008301 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 231023008302 Permease; Region: Permease; pfam02405 231023008303 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 231023008304 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 231023008305 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 231023008306 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 231023008307 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 231023008308 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 231023008309 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 231023008310 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 231023008311 Citrate transporter; Region: CitMHS; pfam03600 231023008312 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 231023008313 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 231023008314 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 231023008315 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 231023008316 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 231023008317 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 231023008318 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 231023008319 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 231023008320 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 231023008321 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 231023008322 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 231023008323 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 231023008324 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 231023008325 ligand binding site [chemical binding]; other site 231023008326 homodimer interface [polypeptide binding]; other site 231023008327 NAD(P) binding site [chemical binding]; other site 231023008328 trimer interface B [polypeptide binding]; other site 231023008329 trimer interface A [polypeptide binding]; other site 231023008330 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 231023008331 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023008332 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 231023008333 dimerization interface [polypeptide binding]; other site 231023008334 substrate binding pocket [chemical binding]; other site 231023008335 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 231023008336 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 231023008337 FAD binding site [chemical binding]; other site 231023008338 substrate binding pocket [chemical binding]; other site 231023008339 catalytic base [active] 231023008340 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 231023008341 CoA-transferase family III; Region: CoA_transf_3; pfam02515 231023008342 Secretin and TonB N terminus short domain; Region: STN; smart00965 231023008343 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 231023008344 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 231023008345 N-terminal plug; other site 231023008346 ligand-binding site [chemical binding]; other site 231023008347 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 231023008348 FecR protein; Region: FecR; pfam04773 231023008349 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 231023008350 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 231023008351 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 231023008352 DNA binding residues [nucleotide binding] 231023008353 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 231023008354 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023008355 DNA-binding site [nucleotide binding]; DNA binding site 231023008356 FCD domain; Region: FCD; pfam07729 231023008357 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 231023008358 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023008359 dimerization interface [polypeptide binding]; other site 231023008360 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 231023008361 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023008362 metal binding site [ion binding]; metal-binding site 231023008363 active site 231023008364 I-site; other site 231023008365 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 231023008366 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 231023008367 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 231023008368 HlyD family secretion protein; Region: HlyD_3; pfam13437 231023008369 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 231023008370 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 231023008371 putative active site [active] 231023008372 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 231023008373 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 231023008374 Walker A/P-loop; other site 231023008375 ATP binding site [chemical binding]; other site 231023008376 Q-loop/lid; other site 231023008377 ABC transporter signature motif; other site 231023008378 Walker B; other site 231023008379 D-loop; other site 231023008380 H-loop/switch region; other site 231023008381 Calx-beta domain; Region: Calx-beta; cl02522 231023008382 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 231023008383 metal ion-dependent adhesion site (MIDAS); other site 231023008384 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 231023008385 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 231023008386 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 231023008387 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 231023008388 NMT1-like family; Region: NMT1_2; pfam13379 231023008389 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 231023008390 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 231023008391 Walker A/P-loop; other site 231023008392 ATP binding site [chemical binding]; other site 231023008393 Q-loop/lid; other site 231023008394 ABC transporter signature motif; other site 231023008395 Walker B; other site 231023008396 D-loop; other site 231023008397 H-loop/switch region; other site 231023008398 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 231023008399 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023008400 putative PBP binding loops; other site 231023008401 ABC-ATPase subunit interface; other site 231023008402 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 231023008403 WYL domain; Region: WYL; pfam13280 231023008404 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 231023008405 Sel1-like repeats; Region: SEL1; smart00671 231023008406 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 231023008407 MarR family; Region: MarR_2; cl17246 231023008408 Fusaric acid resistance protein family; Region: FUSC; pfam04632 231023008409 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 231023008410 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 231023008411 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 231023008412 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 231023008413 HlyD family secretion protein; Region: HlyD_3; pfam13437 231023008414 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 231023008415 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 231023008416 Cytochrome c; Region: Cytochrom_C; pfam00034 231023008417 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 231023008418 TIGR02647 family protein; Region: DNA 231023008419 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 231023008420 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 231023008421 C-terminal domain interface [polypeptide binding]; other site 231023008422 GSH binding site (G-site) [chemical binding]; other site 231023008423 dimer interface [polypeptide binding]; other site 231023008424 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 231023008425 N-terminal domain interface [polypeptide binding]; other site 231023008426 argininosuccinate lyase; Provisional; Region: PRK00855 231023008427 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 231023008428 active sites [active] 231023008429 tetramer interface [polypeptide binding]; other site 231023008430 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 231023008431 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023008432 active site 231023008433 phosphorylation site [posttranslational modification] 231023008434 intermolecular recognition site; other site 231023008435 dimerization interface [polypeptide binding]; other site 231023008436 LytTr DNA-binding domain; Region: LytTR; pfam04397 231023008437 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 231023008438 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 231023008439 domain interfaces; other site 231023008440 active site 231023008441 uroporphyrinogen-III synthase; Validated; Region: PRK05752 231023008442 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 231023008443 active site 231023008444 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 231023008445 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 231023008446 HemY protein N-terminus; Region: HemY_N; pfam07219 231023008447 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 231023008448 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 231023008449 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 231023008450 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 231023008451 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 231023008452 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 231023008453 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 231023008454 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023008455 Walker A/P-loop; other site 231023008456 ATP binding site [chemical binding]; other site 231023008457 Q-loop/lid; other site 231023008458 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 231023008459 ABC transporter signature motif; other site 231023008460 Walker B; other site 231023008461 D-loop; other site 231023008462 ABC transporter; Region: ABC_tran_2; pfam12848 231023008463 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 231023008464 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 231023008465 Mechanosensitive ion channel; Region: MS_channel; pfam00924 231023008466 LysE type translocator; Region: LysE; cl00565 231023008467 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 231023008468 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 231023008469 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 231023008470 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 231023008471 dimer interface [polypeptide binding]; other site 231023008472 active site residues [active] 231023008473 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 231023008474 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 231023008475 putative deacylase active site [active] 231023008476 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 231023008477 FOG: CBS domain [General function prediction only]; Region: COG0517 231023008478 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 231023008479 hypothetical protein; Provisional; Region: PRK06156 231023008480 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 231023008481 active site 231023008482 metal binding site [ion binding]; metal-binding site 231023008483 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 231023008484 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 231023008485 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 231023008486 tetramerization interface [polypeptide binding]; other site 231023008487 NAD(P) binding site [chemical binding]; other site 231023008488 catalytic residues [active] 231023008489 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 231023008490 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 231023008491 inhibitor-cofactor binding pocket; inhibition site 231023008492 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023008493 catalytic residue [active] 231023008494 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 231023008495 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023008496 active site 231023008497 phosphorylation site [posttranslational modification] 231023008498 intermolecular recognition site; other site 231023008499 dimerization interface [polypeptide binding]; other site 231023008500 HDOD domain; Region: HDOD; pfam08668 231023008501 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023008502 PAS fold; Region: PAS_3; pfam08447 231023008503 putative active site [active] 231023008504 heme pocket [chemical binding]; other site 231023008505 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 231023008506 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023008507 metal binding site [ion binding]; metal-binding site 231023008508 active site 231023008509 I-site; other site 231023008510 Fatty acid desaturase; Region: FA_desaturase; pfam00487 231023008511 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 231023008512 Di-iron ligands [ion binding]; other site 231023008513 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 231023008514 Transposase; Region: DDE_Tnp_ISL3; pfam01610 231023008515 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023008516 PAS domain; Region: PAS_9; pfam13426 231023008517 putative active site [active] 231023008518 heme pocket [chemical binding]; other site 231023008519 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 231023008520 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023008521 metal binding site [ion binding]; metal-binding site 231023008522 active site 231023008523 I-site; other site 231023008524 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 231023008525 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023008526 dimer interface [polypeptide binding]; other site 231023008527 conserved gate region; other site 231023008528 putative PBP binding loops; other site 231023008529 ABC-ATPase subunit interface; other site 231023008530 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 231023008531 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 231023008532 Walker A/P-loop; other site 231023008533 ATP binding site [chemical binding]; other site 231023008534 Q-loop/lid; other site 231023008535 ABC transporter signature motif; other site 231023008536 Walker B; other site 231023008537 D-loop; other site 231023008538 H-loop/switch region; other site 231023008539 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 231023008540 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 231023008541 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 231023008542 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 231023008543 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 231023008544 active site 231023008545 non-prolyl cis peptide bond; other site 231023008546 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 231023008547 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 231023008548 active site 231023008549 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 231023008550 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 231023008551 active site 231023008552 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 231023008553 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 231023008554 Walker A/P-loop; other site 231023008555 ATP binding site [chemical binding]; other site 231023008556 Q-loop/lid; other site 231023008557 ABC transporter signature motif; other site 231023008558 Walker B; other site 231023008559 D-loop; other site 231023008560 H-loop/switch region; other site 231023008561 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023008562 dimer interface [polypeptide binding]; other site 231023008563 conserved gate region; other site 231023008564 putative PBP binding loops; other site 231023008565 ABC-ATPase subunit interface; other site 231023008566 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 231023008567 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023008568 substrate binding pocket [chemical binding]; other site 231023008569 membrane-bound complex binding site; other site 231023008570 hinge residues; other site 231023008571 serine O-acetyltransferase; Region: cysE; TIGR01172 231023008572 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 231023008573 trimer interface [polypeptide binding]; other site 231023008574 active site 231023008575 substrate binding site [chemical binding]; other site 231023008576 CoA binding site [chemical binding]; other site 231023008577 BCCT family transporter; Region: BCCT; cl00569 231023008578 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 231023008579 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 231023008580 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 231023008581 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023008582 dimer interface [polypeptide binding]; other site 231023008583 conserved gate region; other site 231023008584 putative PBP binding loops; other site 231023008585 ABC-ATPase subunit interface; other site 231023008586 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 231023008587 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 231023008588 Walker A/P-loop; other site 231023008589 ATP binding site [chemical binding]; other site 231023008590 Q-loop/lid; other site 231023008591 ABC transporter signature motif; other site 231023008592 Walker B; other site 231023008593 D-loop; other site 231023008594 H-loop/switch region; other site 231023008595 taurine ABC transporter, periplasmic binding protein; Region: taurine_ABC_bnd; TIGR01729 231023008596 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023008597 substrate binding pocket [chemical binding]; other site 231023008598 membrane-bound complex binding site; other site 231023008599 hinge residues; other site 231023008600 outer membrane porin, OprD family; Region: OprD; pfam03573 231023008601 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 231023008602 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 231023008603 dimer interface [polypeptide binding]; other site 231023008604 decamer (pentamer of dimers) interface [polypeptide binding]; other site 231023008605 catalytic triad [active] 231023008606 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 231023008607 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 231023008608 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 231023008609 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023008610 substrate binding pocket [chemical binding]; other site 231023008611 membrane-bound complex binding site; other site 231023008612 hinge residues; other site 231023008613 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 231023008614 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 231023008615 active site 231023008616 dimer interface [polypeptide binding]; other site 231023008617 non-prolyl cis peptide bond; other site 231023008618 insertion regions; other site 231023008619 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 231023008620 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023008621 dimer interface [polypeptide binding]; other site 231023008622 conserved gate region; other site 231023008623 putative PBP binding loops; other site 231023008624 ABC-ATPase subunit interface; other site 231023008625 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 231023008626 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 231023008627 Walker A/P-loop; other site 231023008628 ATP binding site [chemical binding]; other site 231023008629 Q-loop/lid; other site 231023008630 ABC transporter signature motif; other site 231023008631 Walker B; other site 231023008632 D-loop; other site 231023008633 H-loop/switch region; other site 231023008634 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 231023008635 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 231023008636 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 231023008637 glutamate--cysteine ligase; Provisional; Region: PRK02107 231023008638 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 231023008639 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 231023008640 CoenzymeA binding site [chemical binding]; other site 231023008641 subunit interaction site [polypeptide binding]; other site 231023008642 PHB binding site; other site 231023008643 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 231023008644 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 231023008645 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 231023008646 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 231023008647 RNA binding site [nucleotide binding]; other site 231023008648 osmolarity response regulator; Provisional; Region: ompR; PRK09468 231023008649 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023008650 active site 231023008651 phosphorylation site [posttranslational modification] 231023008652 intermolecular recognition site; other site 231023008653 dimerization interface [polypeptide binding]; other site 231023008654 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 231023008655 DNA binding site [nucleotide binding] 231023008656 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 231023008657 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023008658 dimerization interface [polypeptide binding]; other site 231023008659 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023008660 ATP binding site [chemical binding]; other site 231023008661 Mg2+ binding site [ion binding]; other site 231023008662 G-X-G motif; other site 231023008663 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 231023008664 RimK-like ATP-grasp domain; Region: RimK; pfam08443 231023008665 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 231023008666 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 231023008667 RNA binding surface [nucleotide binding]; other site 231023008668 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 231023008669 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 231023008670 active site 231023008671 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 231023008672 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 231023008673 dimerization interface [polypeptide binding]; other site 231023008674 domain crossover interface; other site 231023008675 redox-dependent activation switch; other site 231023008676 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 231023008677 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 231023008678 active site 231023008679 substrate-binding site [chemical binding]; other site 231023008680 metal-binding site [ion binding] 231023008681 ATP binding site [chemical binding]; other site 231023008682 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 231023008683 active site 231023008684 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 231023008685 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 231023008686 putative molybdopterin cofactor binding site [chemical binding]; other site 231023008687 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 231023008688 putative molybdopterin cofactor binding site; other site 231023008689 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 231023008690 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 231023008691 BON domain; Region: BON; pfam04972 231023008692 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 231023008693 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 231023008694 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 231023008695 motif II; other site 231023008696 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 231023008697 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 231023008698 dimer interface [polypeptide binding]; other site 231023008699 ADP-ribose binding site [chemical binding]; other site 231023008700 active site 231023008701 nudix motif; other site 231023008702 metal binding site [ion binding]; metal-binding site 231023008703 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 231023008704 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...; Region: CysQ; cd01638 231023008705 active site 231023008706 thioesterase domain, putative; Region: yiiD_Cterm; TIGR02447 231023008707 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 231023008708 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023008709 active site 231023008710 phosphorylation site [posttranslational modification] 231023008711 intermolecular recognition site; other site 231023008712 dimerization interface [polypeptide binding]; other site 231023008713 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023008714 Walker A motif; other site 231023008715 ATP binding site [chemical binding]; other site 231023008716 Walker B motif; other site 231023008717 arginine finger; other site 231023008718 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 231023008719 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 231023008720 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023008721 dimer interface [polypeptide binding]; other site 231023008722 phosphorylation site [posttranslational modification] 231023008723 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023008724 ATP binding site [chemical binding]; other site 231023008725 G-X-G motif; other site 231023008726 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 231023008727 agmatine deiminase; Provisional; Region: PRK13551 231023008728 agmatine deiminase; Region: agmatine_aguA; TIGR03380 231023008729 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 231023008730 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 231023008731 N-terminal plug; other site 231023008732 ligand-binding site [chemical binding]; other site 231023008733 outer membrane porin, OprD family; Region: OprD; pfam03573 231023008734 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 231023008735 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 231023008736 active site 231023008737 FMN binding site [chemical binding]; other site 231023008738 substrate binding site [chemical binding]; other site 231023008739 3Fe-4S cluster binding site [ion binding]; other site 231023008740 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 231023008741 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023008742 ATP binding site [chemical binding]; other site 231023008743 Mg2+ binding site [ion binding]; other site 231023008744 G-X-G motif; other site 231023008745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 231023008746 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023008747 active site 231023008748 phosphorylation site [posttranslational modification] 231023008749 intermolecular recognition site; other site 231023008750 dimerization interface [polypeptide binding]; other site 231023008751 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 231023008752 DNA binding site [nucleotide binding] 231023008753 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 231023008754 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 231023008755 N-terminal plug; other site 231023008756 ligand-binding site [chemical binding]; other site 231023008757 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 231023008758 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 231023008759 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 231023008760 non-specific DNA binding site [nucleotide binding]; other site 231023008761 salt bridge; other site 231023008762 sequence-specific DNA binding site [nucleotide binding]; other site 231023008763 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 231023008764 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 231023008765 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 231023008766 non-specific DNA binding site [nucleotide binding]; other site 231023008767 sequence-specific DNA binding site [nucleotide binding]; other site 231023008768 salt bridge; other site 231023008769 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 231023008770 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 231023008771 active site 231023008772 DNA binding site [nucleotide binding] 231023008773 Int/Topo IB signature motif; other site 231023008774 Phage-related protein [Function unknown]; Region: COG4695; cl01923 231023008775 Phage portal protein; Region: Phage_portal; pfam04860 231023008776 Domain of unknown function (DUF4393); Region: DUF4393; pfam14337 231023008777 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 231023008778 Transposase; Region: HTH_Tnp_1; pfam01527 231023008779 putative transposase OrfB; Reviewed; Region: PHA02517 231023008780 HTH-like domain; Region: HTH_21; pfam13276 231023008781 Integrase core domain; Region: rve; pfam00665 231023008782 Integrase core domain; Region: rve_3; pfam13683 231023008783 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 231023008784 Methyltransferase domain; Region: Methyltransf_32; pfam13679 231023008785 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 231023008786 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023008787 dimer interface [polypeptide binding]; other site 231023008788 conserved gate region; other site 231023008789 putative PBP binding loops; other site 231023008790 ABC-ATPase subunit interface; other site 231023008791 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 231023008792 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023008793 dimer interface [polypeptide binding]; other site 231023008794 conserved gate region; other site 231023008795 putative PBP binding loops; other site 231023008796 ABC-ATPase subunit interface; other site 231023008797 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 231023008798 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023008799 substrate binding pocket [chemical binding]; other site 231023008800 membrane-bound complex binding site; other site 231023008801 hinge residues; other site 231023008802 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 231023008803 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 231023008804 Walker A/P-loop; other site 231023008805 ATP binding site [chemical binding]; other site 231023008806 Q-loop/lid; other site 231023008807 ABC transporter signature motif; other site 231023008808 Walker B; other site 231023008809 D-loop; other site 231023008810 H-loop/switch region; other site 231023008811 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 231023008812 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 231023008813 oxidative damage protection protein; Provisional; Region: PRK05408 231023008814 adenine DNA glycosylase; Provisional; Region: PRK10880 231023008815 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 231023008816 minor groove reading motif; other site 231023008817 helix-hairpin-helix signature motif; other site 231023008818 substrate binding pocket [chemical binding]; other site 231023008819 active site 231023008820 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 231023008821 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 231023008822 DNA binding and oxoG recognition site [nucleotide binding] 231023008823 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 231023008824 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 231023008825 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 231023008826 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 231023008827 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 231023008828 putative active site pocket [active] 231023008829 4-fold oligomerization interface [polypeptide binding]; other site 231023008830 metal binding residues [ion binding]; metal-binding site 231023008831 3-fold/trimer interface [polypeptide binding]; other site 231023008832 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 231023008833 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 231023008834 putative active site [active] 231023008835 oxyanion strand; other site 231023008836 catalytic triad [active] 231023008837 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 231023008838 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 231023008839 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 231023008840 catalytic residues [active] 231023008841 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 231023008842 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 231023008843 substrate binding site [chemical binding]; other site 231023008844 glutamase interaction surface [polypeptide binding]; other site 231023008845 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 231023008846 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023008847 Walker A/P-loop; other site 231023008848 ATP binding site [chemical binding]; other site 231023008849 Q-loop/lid; other site 231023008850 ABC transporter signature motif; other site 231023008851 Walker B; other site 231023008852 D-loop; other site 231023008853 H-loop/switch region; other site 231023008854 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023008855 dimer interface [polypeptide binding]; other site 231023008856 conserved gate region; other site 231023008857 putative PBP binding loops; other site 231023008858 ABC-ATPase subunit interface; other site 231023008859 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 231023008860 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 231023008861 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 231023008862 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 231023008863 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 231023008864 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 231023008865 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 231023008866 conserved cys residue [active] 231023008867 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023008868 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 231023008869 active site 231023008870 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 231023008871 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 231023008872 putative sugar binding sites [chemical binding]; other site 231023008873 Q-X-W motif; other site 231023008874 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 231023008875 active site 231023008876 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 231023008877 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 231023008878 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 231023008879 Uncharacterized conserved protein [Function unknown]; Region: COG3246 231023008880 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 231023008881 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 231023008882 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 231023008883 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 231023008884 conserved cys residue [active] 231023008885 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023008886 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 231023008887 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 231023008888 Membrane dipeptidase (Peptidase family M19); Region: Peptidase_M19; pfam01244 231023008889 active site 231023008890 V4R domain; Region: V4R; cl15268 231023008891 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 231023008892 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 231023008893 putative active site [active] 231023008894 putative FMN binding site [chemical binding]; other site 231023008895 putative substrate binding site [chemical binding]; other site 231023008896 putative catalytic residue [active] 231023008897 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 231023008898 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 231023008899 Cysteine-rich domain; Region: CCG; pfam02754 231023008900 Cysteine-rich domain; Region: CCG; pfam02754 231023008901 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 231023008902 Ligand Binding Site [chemical binding]; other site 231023008903 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 231023008904 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 231023008905 Electron transfer flavoprotein, beta subunit [Energy production and conversion]; Region: FixA; COG2086 231023008906 Ligand Binding Site [chemical binding]; other site 231023008907 Electron transfer flavoprotein domain; Region: ETF; pfam01012 231023008908 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 231023008909 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 231023008910 [2Fe-2S] cluster binding site [ion binding]; other site 231023008911 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 231023008912 putative alpha subunit interface [polypeptide binding]; other site 231023008913 putative active site [active] 231023008914 putative substrate binding site [chemical binding]; other site 231023008915 Fe binding site [ion binding]; other site 231023008916 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 231023008917 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 231023008918 FAD binding pocket [chemical binding]; other site 231023008919 FAD binding motif [chemical binding]; other site 231023008920 phosphate binding motif [ion binding]; other site 231023008921 beta-alpha-beta structure motif; other site 231023008922 NAD binding pocket [chemical binding]; other site 231023008923 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 231023008924 catalytic loop [active] 231023008925 iron binding site [ion binding]; other site 231023008926 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 231023008927 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 231023008928 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 231023008929 HAMP domain; Region: HAMP; pfam00672 231023008930 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 231023008931 dimer interface [polypeptide binding]; other site 231023008932 putative CheW interface [polypeptide binding]; other site 231023008933 Cell division protein ZapA; Region: ZapA; pfam05164 231023008934 Cache domain; Region: Cache_1; pfam02743 231023008935 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023008936 dimerization interface [polypeptide binding]; other site 231023008937 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 231023008938 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 231023008939 dimer interface [polypeptide binding]; other site 231023008940 putative CheW interface [polypeptide binding]; other site 231023008941 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 231023008942 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 231023008943 tetramer interface [polypeptide binding]; other site 231023008944 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023008945 catalytic residue [active] 231023008946 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 231023008947 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 231023008948 dimer interface [polypeptide binding]; other site 231023008949 active site 231023008950 glycine-pyridoxal phosphate binding site [chemical binding]; other site 231023008951 folate binding site [chemical binding]; other site 231023008952 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 231023008953 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 231023008954 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 231023008955 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 231023008956 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 231023008957 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 231023008958 Sarcosine oxidase, gamma subunit family; Region: SoxG; pfam04268 231023008959 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 231023008960 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 231023008961 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 231023008962 putative active site [active] 231023008963 putative substrate binding site [chemical binding]; other site 231023008964 putative cosubstrate binding site; other site 231023008965 catalytic site [active] 231023008966 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 231023008967 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 231023008968 NAD binding site [chemical binding]; other site 231023008969 catalytic Zn binding site [ion binding]; other site 231023008970 structural Zn binding site [ion binding]; other site 231023008971 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 231023008972 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 231023008973 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 231023008974 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 231023008975 putative acyl-acceptor binding pocket; other site 231023008976 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 231023008977 DNA-binding response regulator CreB; Provisional; Region: PRK11083 231023008978 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023008979 active site 231023008980 phosphorylation site [posttranslational modification] 231023008981 intermolecular recognition site; other site 231023008982 dimerization interface [polypeptide binding]; other site 231023008983 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 231023008984 DNA binding site [nucleotide binding] 231023008985 sensory histidine kinase CreC; Provisional; Region: PRK11100 231023008986 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023008987 dimerization interface [polypeptide binding]; other site 231023008988 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023008989 dimer interface [polypeptide binding]; other site 231023008990 phosphorylation site [posttranslational modification] 231023008991 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023008992 ATP binding site [chemical binding]; other site 231023008993 G-X-G motif; other site 231023008994 inner membrane protein; Provisional; Region: PRK11715 231023008995 putative glutathione S-transferase; Provisional; Region: PRK10357 231023008996 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 231023008997 putative C-terminal domain interface [polypeptide binding]; other site 231023008998 putative GSH binding site (G-site) [chemical binding]; other site 231023008999 putative dimer interface [polypeptide binding]; other site 231023009000 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 231023009001 dimer interface [polypeptide binding]; other site 231023009002 N-terminal domain interface [polypeptide binding]; other site 231023009003 putative substrate binding pocket (H-site) [chemical binding]; other site 231023009004 methionine sulfoxide reductase A; Provisional; Region: PRK00058 231023009005 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 231023009006 GAF domain; Region: GAF; pfam01590 231023009007 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023009008 PAS domain; Region: PAS_9; pfam13426 231023009009 putative active site [active] 231023009010 heme pocket [chemical binding]; other site 231023009011 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 231023009012 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023009013 metal binding site [ion binding]; metal-binding site 231023009014 active site 231023009015 I-site; other site 231023009016 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 231023009017 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 231023009018 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 231023009019 E3 interaction surface; other site 231023009020 lipoyl attachment site [posttranslational modification]; other site 231023009021 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 231023009022 E3 interaction surface; other site 231023009023 lipoyl attachment site [posttranslational modification]; other site 231023009024 e3 binding domain; Region: E3_binding; pfam02817 231023009025 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 231023009026 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 231023009027 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 231023009028 dimer interface [polypeptide binding]; other site 231023009029 TPP-binding site [chemical binding]; other site 231023009030 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 231023009031 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 231023009032 metal binding triad; other site 231023009033 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 231023009034 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 231023009035 metal binding triad; other site 231023009036 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 231023009037 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 231023009038 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 231023009039 putative active site [active] 231023009040 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 231023009041 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 231023009042 putative active site [active] 231023009043 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 231023009044 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 231023009045 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 231023009046 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 231023009047 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; cl17270 231023009048 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 231023009049 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 231023009050 active site 231023009051 ATP binding site [chemical binding]; other site 231023009052 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 231023009053 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 231023009054 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 231023009055 Secretin and TonB N terminus short domain; Region: STN; smart00965 231023009056 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 231023009057 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 231023009058 N-terminal plug; other site 231023009059 ligand-binding site [chemical binding]; other site 231023009060 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 231023009061 FecR protein; Region: FecR; pfam04773 231023009062 RNA polymerase sigma factor; Reviewed; Region: PRK12523 231023009063 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 231023009064 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 231023009065 DNA binding residues [nucleotide binding] 231023009066 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 231023009067 active site 231023009068 catalytic site [active] 231023009069 substrate binding site [chemical binding]; other site 231023009070 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 231023009071 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 231023009072 ligand binding site [chemical binding]; other site 231023009073 flexible hinge region; other site 231023009074 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 231023009075 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 231023009076 metal binding triad; other site 231023009077 Response regulator receiver domain; Region: Response_reg; pfam00072 231023009078 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023009079 active site 231023009080 phosphorylation site [posttranslational modification] 231023009081 intermolecular recognition site; other site 231023009082 dimerization interface [polypeptide binding]; other site 231023009083 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 231023009084 active site 231023009085 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 231023009086 ACT domain; Region: ACT_6; pfam13740 231023009087 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 231023009088 Predicted permeases [General function prediction only]; Region: RarD; COG2962 231023009089 serine/threonine protein kinase; Provisional; Region: PRK11768 231023009090 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 231023009091 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 231023009092 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 231023009093 TOBE domain; Region: TOBE; cl01440 231023009094 DNA utilization protein GntX; Provisional; Region: PRK11595 231023009095 biotin synthase; Provisional; Region: PRK15108 231023009096 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 231023009097 FeS/SAM binding site; other site 231023009098 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 231023009099 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 231023009100 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 231023009101 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 231023009102 catalytic residue [active] 231023009103 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 231023009104 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 231023009105 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 231023009106 S-adenosylmethionine binding site [chemical binding]; other site 231023009107 AAA domain; Region: AAA_26; pfam13500 231023009108 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 231023009109 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 231023009110 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 231023009111 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 231023009112 active site 231023009113 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 231023009114 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 231023009115 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023009116 metal binding site [ion binding]; metal-binding site 231023009117 active site 231023009118 I-site; other site 231023009119 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 231023009120 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 231023009121 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 231023009122 active site 231023009123 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 231023009124 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023009125 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023009126 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 231023009127 dimerization interface [polypeptide binding]; other site 231023009128 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 231023009129 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 231023009130 inhibitor-cofactor binding pocket; inhibition site 231023009131 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023009132 catalytic residue [active] 231023009133 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 231023009134 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 231023009135 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 231023009136 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 231023009137 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 231023009138 FeS/SAM binding site; other site 231023009139 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 231023009140 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 231023009141 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 231023009142 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 231023009143 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 231023009144 coenzyme PQQ biosynthesis probable peptidase PqqF; Region: PQQ_syn_pqqF; TIGR02110 231023009145 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 231023009146 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 231023009147 Predicted amidohydrolase [General function prediction only]; Region: COG0388 231023009148 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 231023009149 putative active site [active] 231023009150 catalytic triad [active] 231023009151 putative dimer interface [polypeptide binding]; other site 231023009152 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 231023009153 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 231023009154 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 231023009155 putative DNA binding site [nucleotide binding]; other site 231023009156 putative Zn2+ binding site [ion binding]; other site 231023009157 AsnC family; Region: AsnC_trans_reg; pfam01037 231023009158 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 231023009159 trimer interface [polypeptide binding]; other site 231023009160 active site 231023009161 substrate binding site [chemical binding]; other site 231023009162 CoA binding site [chemical binding]; other site 231023009163 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 231023009164 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023009165 substrate binding pocket [chemical binding]; other site 231023009166 membrane-bound complex binding site; other site 231023009167 hinge residues; other site 231023009168 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 231023009169 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023009170 putative active site [active] 231023009171 heme pocket [chemical binding]; other site 231023009172 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023009173 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 231023009174 putative active site [active] 231023009175 heme pocket [chemical binding]; other site 231023009176 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023009177 putative active site [active] 231023009178 heme pocket [chemical binding]; other site 231023009179 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023009180 putative active site [active] 231023009181 heme pocket [chemical binding]; other site 231023009182 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023009183 metal binding site [ion binding]; metal-binding site 231023009184 active site 231023009185 I-site; other site 231023009186 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 231023009187 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 231023009188 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 231023009189 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 231023009190 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 231023009191 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 231023009192 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 231023009193 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 231023009194 DNA binding residues [nucleotide binding] 231023009195 DNA primase, catalytic core; Region: dnaG; TIGR01391 231023009196 CHC2 zinc finger; Region: zf-CHC2; pfam01807 231023009197 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 231023009198 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 231023009199 active site 231023009200 metal binding site [ion binding]; metal-binding site 231023009201 interdomain interaction site; other site 231023009202 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 231023009203 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 231023009204 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 231023009205 UGMP family protein; Validated; Region: PRK09604 231023009206 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 231023009207 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 231023009208 Dihydroneopterin aldolase; Region: FolB; smart00905 231023009209 active site 231023009210 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 231023009211 catalytic center binding site [active] 231023009212 ATP binding site [chemical binding]; other site 231023009213 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 231023009214 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 231023009215 active site 231023009216 NTP binding site [chemical binding]; other site 231023009217 metal binding triad [ion binding]; metal-binding site 231023009218 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 231023009219 SpoVR family protein; Provisional; Region: PRK11767 231023009220 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 231023009221 hypothetical protein; Provisional; Region: PRK05325 231023009222 PrkA family serine protein kinase; Provisional; Region: PRK15455 231023009223 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 231023009224 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 231023009225 active site residue [active] 231023009226 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 231023009227 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 231023009228 active site 231023009229 metal binding site [ion binding]; metal-binding site 231023009230 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 231023009231 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 231023009232 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 231023009233 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 231023009234 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 231023009235 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 231023009236 SurA N-terminal domain; Region: SurA_N; pfam09312 231023009237 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 231023009238 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 231023009239 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 231023009240 OstA-like protein; Region: OstA; cl00844 231023009241 Organic solvent tolerance protein; Region: OstA_C; pfam04453 231023009242 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 231023009243 Phosphotransferase enzyme family; Region: APH; pfam01636 231023009244 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 231023009245 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 231023009246 Substrate binding site; other site 231023009247 metal-binding site 231023009248 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 231023009249 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 231023009250 putative metal binding site [ion binding]; other site 231023009251 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 231023009252 HSP70 interaction site [polypeptide binding]; other site 231023009253 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 231023009254 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 231023009255 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023009256 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 231023009257 substrate binding pocket [chemical binding]; other site 231023009258 membrane-bound complex binding site; other site 231023009259 hinge residues; other site 231023009260 PAS domain; Region: PAS_9; pfam13426 231023009261 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023009262 putative active site [active] 231023009263 heme pocket [chemical binding]; other site 231023009264 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023009265 PAS fold; Region: PAS_3; pfam08447 231023009266 putative active site [active] 231023009267 heme pocket [chemical binding]; other site 231023009268 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 231023009269 Histidine kinase; Region: HisKA_3; pfam07730 231023009270 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023009271 ATP binding site [chemical binding]; other site 231023009272 Mg2+ binding site [ion binding]; other site 231023009273 G-X-G motif; other site 231023009274 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 231023009275 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023009276 active site 231023009277 phosphorylation site [posttranslational modification] 231023009278 intermolecular recognition site; other site 231023009279 dimerization interface [polypeptide binding]; other site 231023009280 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 231023009281 DNA binding residues [nucleotide binding] 231023009282 dimerization interface [polypeptide binding]; other site 231023009283 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 231023009284 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 231023009285 Walker A/P-loop; other site 231023009286 ATP binding site [chemical binding]; other site 231023009287 Q-loop/lid; other site 231023009288 ABC transporter signature motif; other site 231023009289 Walker B; other site 231023009290 D-loop; other site 231023009291 H-loop/switch region; other site 231023009292 TOBE domain; Region: TOBE_2; pfam08402 231023009293 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 231023009294 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 231023009295 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023009296 dimer interface [polypeptide binding]; other site 231023009297 conserved gate region; other site 231023009298 putative PBP binding loops; other site 231023009299 ABC-ATPase subunit interface; other site 231023009300 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 231023009301 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023009302 dimer interface [polypeptide binding]; other site 231023009303 conserved gate region; other site 231023009304 putative PBP binding loops; other site 231023009305 ABC-ATPase subunit interface; other site 231023009306 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 231023009307 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 231023009308 substrate binding site [chemical binding]; other site 231023009309 hexamer interface [polypeptide binding]; other site 231023009310 metal binding site [ion binding]; metal-binding site 231023009311 phosphoglycolate phosphatase; Provisional; Region: PRK13223 231023009312 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 231023009313 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 231023009314 motif II; other site 231023009315 anthranilate synthase component I; Provisional; Region: PRK13565 231023009316 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 231023009317 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 231023009318 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 231023009319 Triacylglycerol lipase-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: Triacylglycerol_lipase_like; cd01847 231023009320 active site 231023009321 catalytic triad [active] 231023009322 oxyanion hole [active] 231023009323 Autotransporter beta-domain; Region: Autotransporter; pfam03797 231023009324 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 231023009325 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 231023009326 glutamine binding [chemical binding]; other site 231023009327 catalytic triad [active] 231023009328 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 231023009329 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 231023009330 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 231023009331 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 231023009332 active site 231023009333 ribulose/triose binding site [chemical binding]; other site 231023009334 phosphate binding site [ion binding]; other site 231023009335 substrate (anthranilate) binding pocket [chemical binding]; other site 231023009336 product (indole) binding pocket [chemical binding]; other site 231023009337 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 231023009338 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 231023009339 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 231023009340 ligand binding site [chemical binding]; other site 231023009341 flexible hinge region; other site 231023009342 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 231023009343 putative switch regulator; other site 231023009344 non-specific DNA interactions [nucleotide binding]; other site 231023009345 DNA binding site [nucleotide binding] 231023009346 sequence specific DNA binding site [nucleotide binding]; other site 231023009347 putative cAMP binding site [chemical binding]; other site 231023009348 OsmC-like protein; Region: OsmC; cl00767 231023009349 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 231023009350 diiron binding motif [ion binding]; other site 231023009351 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 231023009352 nucleotide binding site/active site [active] 231023009353 HIT family signature motif; other site 231023009354 catalytic residue [active] 231023009355 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 231023009356 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 231023009357 NAD(P) binding site [chemical binding]; other site 231023009358 active site 231023009359 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 231023009360 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 231023009361 FMN binding site [chemical binding]; other site 231023009362 substrate binding site [chemical binding]; other site 231023009363 putative catalytic residue [active] 231023009364 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 231023009365 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 231023009366 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 231023009367 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 231023009368 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 231023009369 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 231023009370 Peptidase family M23; Region: Peptidase_M23; pfam01551 231023009371 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 231023009372 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 231023009373 active site 231023009374 HIGH motif; other site 231023009375 dimer interface [polypeptide binding]; other site 231023009376 KMSKS motif; other site 231023009377 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 231023009378 Biotin operon repressor [Transcription]; Region: BirA; COG1654 231023009379 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 231023009380 pantothenate kinase; Reviewed; Region: PRK13322 231023009381 elongation factor Tu; Reviewed; Region: PRK00049 231023009382 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 231023009383 G1 box; other site 231023009384 GEF interaction site [polypeptide binding]; other site 231023009385 GTP/Mg2+ binding site [chemical binding]; other site 231023009386 Switch I region; other site 231023009387 G2 box; other site 231023009388 G3 box; other site 231023009389 Switch II region; other site 231023009390 G4 box; other site 231023009391 G5 box; other site 231023009392 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 231023009393 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 231023009394 Antibiotic Binding Site [chemical binding]; other site 231023009395 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 231023009396 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 231023009397 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 231023009398 putative homodimer interface [polypeptide binding]; other site 231023009399 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 231023009400 heterodimer interface [polypeptide binding]; other site 231023009401 homodimer interface [polypeptide binding]; other site 231023009402 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 231023009403 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 231023009404 23S rRNA interface [nucleotide binding]; other site 231023009405 L7/L12 interface [polypeptide binding]; other site 231023009406 putative thiostrepton binding site; other site 231023009407 L25 interface [polypeptide binding]; other site 231023009408 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 231023009409 mRNA/rRNA interface [nucleotide binding]; other site 231023009410 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 231023009411 23S rRNA interface [nucleotide binding]; other site 231023009412 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 231023009413 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 231023009414 core dimer interface [polypeptide binding]; other site 231023009415 peripheral dimer interface [polypeptide binding]; other site 231023009416 L10 interface [polypeptide binding]; other site 231023009417 L11 interface [polypeptide binding]; other site 231023009418 putative EF-Tu interaction site [polypeptide binding]; other site 231023009419 putative EF-G interaction site [polypeptide binding]; other site 231023009420 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 231023009421 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 231023009422 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 231023009423 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 231023009424 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 231023009425 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 231023009426 RPB3 interaction site [polypeptide binding]; other site 231023009427 RPB1 interaction site [polypeptide binding]; other site 231023009428 RPB11 interaction site [polypeptide binding]; other site 231023009429 RPB10 interaction site [polypeptide binding]; other site 231023009430 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 231023009431 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 231023009432 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 231023009433 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 231023009434 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 231023009435 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 231023009436 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 231023009437 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 231023009438 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 231023009439 DNA binding site [nucleotide binding] 231023009440 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 231023009441 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 231023009442 streptomycin interaction site [chemical binding]; other site 231023009443 23S rRNA interaction site [nucleotide binding]; other site 231023009444 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 231023009445 16S rRNA interaction site [nucleotide binding]; other site 231023009446 30S ribosomal protein S7; Validated; Region: PRK05302 231023009447 elongation factor G; Reviewed; Region: PRK00007 231023009448 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 231023009449 G1 box; other site 231023009450 putative GEF interaction site [polypeptide binding]; other site 231023009451 GTP/Mg2+ binding site [chemical binding]; other site 231023009452 Switch I region; other site 231023009453 G2 box; other site 231023009454 G3 box; other site 231023009455 Switch II region; other site 231023009456 G4 box; other site 231023009457 G5 box; other site 231023009458 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 231023009459 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 231023009460 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 231023009461 elongation factor Tu; Reviewed; Region: PRK00049 231023009462 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 231023009463 G1 box; other site 231023009464 GEF interaction site [polypeptide binding]; other site 231023009465 GTP/Mg2+ binding site [chemical binding]; other site 231023009466 Switch I region; other site 231023009467 G2 box; other site 231023009468 G3 box; other site 231023009469 Switch II region; other site 231023009470 G4 box; other site 231023009471 G5 box; other site 231023009472 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 231023009473 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 231023009474 Antibiotic Binding Site [chemical binding]; other site 231023009475 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 231023009476 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 231023009477 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 231023009478 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 231023009479 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 231023009480 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 231023009481 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 231023009482 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 231023009483 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 231023009484 protein-rRNA interface [nucleotide binding]; other site 231023009485 putative translocon binding site; other site 231023009486 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 231023009487 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 231023009488 G-X-X-G motif; other site 231023009489 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 231023009490 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 231023009491 23S rRNA interface [nucleotide binding]; other site 231023009492 5S rRNA interface [nucleotide binding]; other site 231023009493 putative antibiotic binding site [chemical binding]; other site 231023009494 L25 interface [polypeptide binding]; other site 231023009495 L27 interface [polypeptide binding]; other site 231023009496 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 231023009497 23S rRNA interface [nucleotide binding]; other site 231023009498 putative translocon interaction site; other site 231023009499 signal recognition particle (SRP54) interaction site; other site 231023009500 L23 interface [polypeptide binding]; other site 231023009501 trigger factor interaction site; other site 231023009502 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 231023009503 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 231023009504 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 231023009505 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 231023009506 RNA binding site [nucleotide binding]; other site 231023009507 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 231023009508 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 231023009509 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 231023009510 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 231023009511 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 231023009512 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 231023009513 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 231023009514 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 231023009515 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 231023009516 5S rRNA interface [nucleotide binding]; other site 231023009517 23S rRNA interface [nucleotide binding]; other site 231023009518 L5 interface [polypeptide binding]; other site 231023009519 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 231023009520 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 231023009521 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 231023009522 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 231023009523 23S rRNA binding site [nucleotide binding]; other site 231023009524 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 231023009525 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 231023009526 SecY translocase; Region: SecY; pfam00344 231023009527 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 231023009528 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 231023009529 30S ribosomal protein S13; Region: bact_S13; TIGR03631 231023009530 30S ribosomal protein S11; Validated; Region: PRK05309 231023009531 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 231023009532 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 231023009533 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 231023009534 RNA binding surface [nucleotide binding]; other site 231023009535 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 231023009536 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 231023009537 alphaNTD homodimer interface [polypeptide binding]; other site 231023009538 alphaNTD - beta interaction site [polypeptide binding]; other site 231023009539 alphaNTD - beta' interaction site [polypeptide binding]; other site 231023009540 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 231023009541 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 231023009542 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 231023009543 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 231023009544 tetramer interface [polypeptide binding]; other site 231023009545 heme binding pocket [chemical binding]; other site 231023009546 NADPH binding site [chemical binding]; other site 231023009547 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 231023009548 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 231023009549 heme binding site [chemical binding]; other site 231023009550 ferroxidase pore; other site 231023009551 ferroxidase diiron center [ion binding]; other site 231023009552 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 231023009553 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 231023009554 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 231023009555 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 231023009556 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 231023009557 Major Facilitator Superfamily; Region: MFS_1; pfam07690 231023009558 putative substrate translocation pore; other site 231023009559 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 231023009560 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 231023009561 dimer interface [polypeptide binding]; other site 231023009562 ssDNA binding site [nucleotide binding]; other site 231023009563 tetramer (dimer of dimers) interface [polypeptide binding]; other site 231023009564 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 231023009565 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023009566 DNA-binding site [nucleotide binding]; DNA binding site 231023009567 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 231023009568 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023009569 homodimer interface [polypeptide binding]; other site 231023009570 catalytic residue [active] 231023009571 hypothetical protein; Provisional; Region: PRK10621 231023009572 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 231023009573 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 231023009574 malonic semialdehyde reductase; Provisional; Region: PRK10538 231023009575 putative NAD(P) binding site [chemical binding]; other site 231023009576 homotetramer interface [polypeptide binding]; other site 231023009577 homodimer interface [polypeptide binding]; other site 231023009578 active site 231023009579 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 231023009580 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 231023009581 molybdopterin cofactor binding site; other site 231023009582 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 231023009583 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 231023009584 molybdopterin cofactor binding site; other site 231023009585 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 231023009586 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 231023009587 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 231023009588 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 231023009589 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 231023009590 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 231023009591 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 231023009592 selenocysteine synthase; Provisional; Region: PRK04311 231023009593 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 231023009594 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 231023009595 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 231023009596 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 231023009597 G1 box; other site 231023009598 putative GEF interaction site [polypeptide binding]; other site 231023009599 GTP/Mg2+ binding site [chemical binding]; other site 231023009600 Switch I region; other site 231023009601 G2 box; other site 231023009602 G3 box; other site 231023009603 Switch II region; other site 231023009604 G4 box; other site 231023009605 G5 box; other site 231023009606 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 231023009607 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 231023009608 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 231023009609 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 231023009610 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 231023009611 active site 231023009612 homodimer interface [polypeptide binding]; other site 231023009613 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 231023009614 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 231023009615 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 231023009616 sequence-specific DNA binding site [nucleotide binding]; other site 231023009617 salt bridge; other site 231023009618 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 231023009619 hypothetical protein; Provisional; Region: PRK10621 231023009620 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 231023009621 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 231023009622 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 231023009623 NAD(P) binding site [chemical binding]; other site 231023009624 active site 231023009625 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 231023009626 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 231023009627 NAD(P) binding site [chemical binding]; other site 231023009628 active site 231023009629 Predicted transcriptional regulators [Transcription]; Region: COG1733 231023009630 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 231023009631 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 231023009632 OmpW family; Region: OmpW; cl17427 231023009633 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 231023009634 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 231023009635 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 231023009636 FtsX-like permease family; Region: FtsX; pfam02687 231023009637 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 231023009638 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 231023009639 Walker A/P-loop; other site 231023009640 ATP binding site [chemical binding]; other site 231023009641 Q-loop/lid; other site 231023009642 ABC transporter signature motif; other site 231023009643 Walker B; other site 231023009644 D-loop; other site 231023009645 H-loop/switch region; other site 231023009646 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 231023009647 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 231023009648 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 231023009649 Predicted methyltransferase [General function prediction only]; Region: COG3897 231023009650 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 231023009651 S-adenosylmethionine binding site [chemical binding]; other site 231023009652 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 231023009653 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 231023009654 ATP cone domain; Region: ATP-cone; pfam03477 231023009655 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 231023009656 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 231023009657 catalytic motif [active] 231023009658 Zn binding site [ion binding]; other site 231023009659 RibD C-terminal domain; Region: RibD_C; cl17279 231023009660 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 231023009661 Lumazine binding domain; Region: Lum_binding; pfam00677 231023009662 Lumazine binding domain; Region: Lum_binding; pfam00677 231023009663 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 231023009664 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 231023009665 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 231023009666 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 231023009667 homopentamer interface [polypeptide binding]; other site 231023009668 active site 231023009669 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 231023009670 putative RNA binding site [nucleotide binding]; other site 231023009671 thiamine monophosphate kinase; Provisional; Region: PRK05731 231023009672 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 231023009673 ATP binding site [chemical binding]; other site 231023009674 dimerization interface [polypeptide binding]; other site 231023009675 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 231023009676 tetramer interfaces [polypeptide binding]; other site 231023009677 binuclear metal-binding site [ion binding]; other site 231023009678 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 231023009679 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023009680 membrane-bound complex binding site; other site 231023009681 hinge residues; other site 231023009682 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 231023009683 dimerization interface [polypeptide binding]; other site 231023009684 active site 231023009685 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 231023009686 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 231023009687 cobalamin binding residues [chemical binding]; other site 231023009688 putative BtuC binding residues; other site 231023009689 dimer interface [polypeptide binding]; other site 231023009690 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 231023009691 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 231023009692 N-terminal plug; other site 231023009693 ligand-binding site [chemical binding]; other site 231023009694 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 231023009695 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 231023009696 TPP-binding site; other site 231023009697 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 231023009698 PYR/PP interface [polypeptide binding]; other site 231023009699 dimer interface [polypeptide binding]; other site 231023009700 TPP binding site [chemical binding]; other site 231023009701 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 231023009702 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 231023009703 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 231023009704 substrate binding pocket [chemical binding]; other site 231023009705 chain length determination region; other site 231023009706 substrate-Mg2+ binding site; other site 231023009707 catalytic residues [active] 231023009708 aspartate-rich region 1; other site 231023009709 active site lid residues [active] 231023009710 aspartate-rich region 2; other site 231023009711 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 231023009712 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 231023009713 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 231023009714 Zeta toxin; Region: Zeta_toxin; pfam06414 231023009715 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 231023009716 Putative esterase; Region: Esterase; pfam00756 231023009717 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 231023009718 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023009719 phosphorylation site [posttranslational modification] 231023009720 dimer interface [polypeptide binding]; other site 231023009721 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023009722 ATP binding site [chemical binding]; other site 231023009723 Mg2+ binding site [ion binding]; other site 231023009724 G-X-G motif; other site 231023009725 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 231023009726 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023009727 active site 231023009728 phosphorylation site [posttranslational modification] 231023009729 intermolecular recognition site; other site 231023009730 dimerization interface [polypeptide binding]; other site 231023009731 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 231023009732 DNA binding site [nucleotide binding] 231023009733 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 231023009734 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 231023009735 N-terminal plug; other site 231023009736 ligand-binding site [chemical binding]; other site 231023009737 Hemerythrin-like domain; Region: Hr-like; cd12108 231023009738 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 231023009739 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 231023009740 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 231023009741 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 231023009742 Multicopper oxidase; Region: Cu-oxidase; pfam00394 231023009743 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 231023009744 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 231023009745 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 231023009746 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 231023009747 non-specific DNA binding site [nucleotide binding]; other site 231023009748 salt bridge; other site 231023009749 sequence-specific DNA binding site [nucleotide binding]; other site 231023009750 Predicted transcriptional regulator [Transcription]; Region: COG2932 231023009751 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 231023009752 dimer interface [polypeptide binding]; other site 231023009753 substrate binding site [chemical binding]; other site 231023009754 metal binding sites [ion binding]; metal-binding site 231023009755 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 231023009756 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 231023009757 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 231023009758 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 231023009759 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 231023009760 Coenzyme A binding pocket [chemical binding]; other site 231023009761 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 231023009762 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 231023009763 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 231023009764 ethanolamine permease; Region: 2A0305; TIGR00908 231023009765 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 231023009766 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 231023009767 NAD(P) binding site [chemical binding]; other site 231023009768 catalytic residues [active] 231023009769 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 231023009770 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023009771 Walker A motif; other site 231023009772 ATP binding site [chemical binding]; other site 231023009773 Walker B motif; other site 231023009774 arginine finger; other site 231023009775 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 231023009776 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 231023009777 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 231023009778 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 231023009779 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 231023009780 aromatic acid decarboxylase; Validated; Region: PRK05920 231023009781 Flavoprotein; Region: Flavoprotein; pfam02441 231023009782 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 231023009783 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 231023009784 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 231023009785 NAD binding site [chemical binding]; other site 231023009786 active site 231023009787 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 231023009788 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 231023009789 Peptidase C13 family; Region: Peptidase_C13; pfam01650 231023009790 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 231023009791 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 231023009792 putative NAD(P) binding site [chemical binding]; other site 231023009793 catalytic Zn binding site [ion binding]; other site 231023009794 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 231023009795 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 231023009796 E3 interaction surface; other site 231023009797 lipoyl attachment site [posttranslational modification]; other site 231023009798 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 231023009799 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 231023009800 alpha subunit interface [polypeptide binding]; other site 231023009801 TPP binding site [chemical binding]; other site 231023009802 heterodimer interface [polypeptide binding]; other site 231023009803 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 231023009804 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 231023009805 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 231023009806 tetramer interface [polypeptide binding]; other site 231023009807 TPP-binding site [chemical binding]; other site 231023009808 heterodimer interface [polypeptide binding]; other site 231023009809 phosphorylation loop region [posttranslational modification] 231023009810 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 231023009811 ATP-NAD kinase; Region: NAD_kinase; pfam01513 231023009812 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 231023009813 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023009814 Walker A motif; other site 231023009815 ATP binding site [chemical binding]; other site 231023009816 Walker B motif; other site 231023009817 arginine finger; other site 231023009818 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 231023009819 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 231023009820 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 231023009821 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 231023009822 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 231023009823 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 231023009824 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 231023009825 carboxyltransferase (CT) interaction site; other site 231023009826 biotinylation site [posttranslational modification]; other site 231023009827 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 231023009828 Dehydroquinase class II; Region: DHquinase_II; pfam01220 231023009829 active site 231023009830 trimer interface [polypeptide binding]; other site 231023009831 dimer interface [polypeptide binding]; other site 231023009832 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 231023009833 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 231023009834 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 231023009835 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 231023009836 DsbD alpha interface [polypeptide binding]; other site 231023009837 catalytic residues [active] 231023009838 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 231023009839 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 231023009840 dimer interface [polypeptide binding]; other site 231023009841 putative CheW interface [polypeptide binding]; other site 231023009842 Response regulator receiver domain; Region: Response_reg; pfam00072 231023009843 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 231023009844 active site 231023009845 phosphorylation site [posttranslational modification] 231023009846 intermolecular recognition site; other site 231023009847 dimerization interface [polypeptide binding]; other site 231023009848 Response regulator receiver domain; Region: Response_reg; pfam00072 231023009849 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023009850 active site 231023009851 phosphorylation site [posttranslational modification] 231023009852 intermolecular recognition site; other site 231023009853 dimerization interface [polypeptide binding]; other site 231023009854 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 231023009855 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023009856 metal binding site [ion binding]; metal-binding site 231023009857 active site 231023009858 I-site; other site 231023009859 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 231023009860 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 231023009861 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 231023009862 nudix motif; other site 231023009863 translation initiation factor Sui1; Validated; Region: PRK06824 231023009864 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 231023009865 putative rRNA binding site [nucleotide binding]; other site 231023009866 arginine decarboxylase; Provisional; Region: PRK05354 231023009867 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 231023009868 dimer interface [polypeptide binding]; other site 231023009869 active site 231023009870 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 231023009871 catalytic residues [active] 231023009872 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 231023009873 Transposase IS200 like; Region: Y1_Tnp; pfam01797 231023009874 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 231023009875 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 231023009876 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 231023009877 MG2 domain; Region: A2M_N; pfam01835 231023009878 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 231023009879 Alpha-2-macroglobulin family; Region: A2M; pfam00207 231023009880 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 231023009881 surface patch; other site 231023009882 thioester region; other site 231023009883 specificity defining residues; other site 231023009884 penicillin-binding protein 1C; Provisional; Region: PRK11240 231023009885 Transglycosylase; Region: Transgly; pfam00912 231023009886 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 231023009887 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 231023009888 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 231023009889 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 231023009890 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 231023009891 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023009892 active site 231023009893 phosphorylation site [posttranslational modification] 231023009894 intermolecular recognition site; other site 231023009895 dimerization interface [polypeptide binding]; other site 231023009896 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 231023009897 DNA binding residues [nucleotide binding] 231023009898 dimerization interface [polypeptide binding]; other site 231023009899 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 231023009900 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 231023009901 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 231023009902 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 231023009903 S-adenosylmethionine binding site [chemical binding]; other site 231023009904 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 231023009905 homodimer interface [polypeptide binding]; other site 231023009906 chemical substrate binding site [chemical binding]; other site 231023009907 oligomer interface [polypeptide binding]; other site 231023009908 metal binding site [ion binding]; metal-binding site 231023009909 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 231023009910 active site 2 [active] 231023009911 active site 1 [active] 231023009912 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 231023009913 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 231023009914 NAD(P) binding site [chemical binding]; other site 231023009915 active site 231023009916 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 231023009917 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 231023009918 dimer interface [polypeptide binding]; other site 231023009919 active site 231023009920 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 231023009921 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 231023009922 Cache domain; Region: Cache_1; pfam02743 231023009923 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 231023009924 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023009925 dimerization interface [polypeptide binding]; other site 231023009926 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 231023009927 dimer interface [polypeptide binding]; other site 231023009928 putative CheW interface [polypeptide binding]; other site 231023009929 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 231023009930 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 231023009931 DNA binding residues [nucleotide binding] 231023009932 dimer interface [polypeptide binding]; other site 231023009933 copper binding site [ion binding]; other site 231023009934 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 231023009935 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 231023009936 metal-binding site [ion binding] 231023009937 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 231023009938 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 231023009939 metal-binding site [ion binding] 231023009940 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 231023009941 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 231023009942 metal-binding site [ion binding] 231023009943 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 231023009944 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 231023009945 putative substrate translocation pore; other site 231023009946 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 231023009947 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 231023009948 active site 231023009949 purine riboside binding site [chemical binding]; other site 231023009950 short chain dehydrogenase; Provisional; Region: PRK08177 231023009951 C factor cell-cell signaling protein; Provisional; Region: PRK09009 231023009952 NAD(P) binding site [chemical binding]; other site 231023009953 active site 231023009954 Uncharacterized conserved protein [Function unknown]; Region: COG1739 231023009955 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 231023009956 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 231023009957 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 231023009958 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 231023009959 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 231023009960 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023009961 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023009962 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 231023009963 dimerization interface [polypeptide binding]; other site 231023009964 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 231023009965 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 231023009966 inhibitor-cofactor binding pocket; inhibition site 231023009967 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023009968 catalytic residue [active] 231023009969 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 231023009970 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 231023009971 tetrameric interface [polypeptide binding]; other site 231023009972 NAD binding site [chemical binding]; other site 231023009973 catalytic residues [active] 231023009974 Paraquat-inducible protein A; Region: PqiA; pfam04403 231023009975 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 231023009976 Paraquat-inducible protein A; Region: PqiA; pfam04403 231023009977 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 231023009978 mce related protein; Region: MCE; pfam02470 231023009979 mce related protein; Region: MCE; pfam02470 231023009980 mce related protein; Region: MCE; pfam02470 231023009981 mce related protein; Region: MCE; pfam02470 231023009982 mce related protein; Region: MCE; pfam02470 231023009983 mce related protein; Region: MCE; pfam02470 231023009984 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 231023009985 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 231023009986 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 231023009987 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 231023009988 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 231023009989 active site 231023009990 Riboflavin kinase; Region: Flavokinase; pfam01687 231023009991 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 231023009992 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 231023009993 active site 231023009994 HIGH motif; other site 231023009995 nucleotide binding site [chemical binding]; other site 231023009996 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 231023009997 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 231023009998 active site 231023009999 KMSKS motif; other site 231023010000 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 231023010001 tRNA binding surface [nucleotide binding]; other site 231023010002 anticodon binding site; other site 231023010003 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 231023010004 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 231023010005 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 231023010006 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 231023010007 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 231023010008 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 231023010009 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 231023010010 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 231023010011 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 231023010012 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 231023010013 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 231023010014 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 231023010015 putative amidase; Provisional; Region: PRK06169 231023010016 Amidase; Region: Amidase; pfam01425 231023010017 allantoate amidohydrolase; Reviewed; Region: PRK12893 231023010018 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 231023010019 active site 231023010020 metal binding site [ion binding]; metal-binding site 231023010021 dimer interface [polypeptide binding]; other site 231023010022 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 231023010023 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 231023010024 Walker A/P-loop; other site 231023010025 ATP binding site [chemical binding]; other site 231023010026 Q-loop/lid; other site 231023010027 ABC transporter signature motif; other site 231023010028 Walker B; other site 231023010029 D-loop; other site 231023010030 H-loop/switch region; other site 231023010031 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 231023010032 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 231023010033 Walker A/P-loop; other site 231023010034 ATP binding site [chemical binding]; other site 231023010035 Q-loop/lid; other site 231023010036 ABC transporter signature motif; other site 231023010037 Walker B; other site 231023010038 D-loop; other site 231023010039 H-loop/switch region; other site 231023010040 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 231023010041 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 231023010042 TM-ABC transporter signature motif; other site 231023010043 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 231023010044 TM-ABC transporter signature motif; other site 231023010045 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 231023010046 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 231023010047 putative ligand binding site [chemical binding]; other site 231023010048 Transcriptional regulators [Transcription]; Region: FadR; COG2186 231023010049 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023010050 DNA-binding site [nucleotide binding]; DNA binding site 231023010051 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 231023010052 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 231023010053 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 231023010054 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 231023010055 RNA binding surface [nucleotide binding]; other site 231023010056 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 231023010057 active site 231023010058 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 231023010059 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 231023010060 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 231023010061 Clp amino terminal domain; Region: Clp_N; pfam02861 231023010062 Clp amino terminal domain; Region: Clp_N; pfam02861 231023010063 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023010064 Walker A motif; other site 231023010065 ATP binding site [chemical binding]; other site 231023010066 Walker B motif; other site 231023010067 arginine finger; other site 231023010068 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023010069 Walker A motif; other site 231023010070 ATP binding site [chemical binding]; other site 231023010071 Walker B motif; other site 231023010072 arginine finger; other site 231023010073 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 231023010074 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 231023010075 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 231023010076 Protein of unknown function (DUF3094); Region: DUF3094; pfam11293 231023010077 Protein of unknown function (DUF1780); Region: DUF1780; pfam08682 231023010078 Predicted membrane protein [Function unknown]; Region: COG3235 231023010079 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 231023010080 Domain of unknown function (DUF329); Region: DUF329; cl01144 231023010081 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 231023010082 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 231023010083 CoA-binding site [chemical binding]; other site 231023010084 ATP-binding [chemical binding]; other site 231023010085 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 231023010086 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 231023010087 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 231023010088 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 231023010089 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 231023010090 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 231023010091 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 231023010092 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 231023010093 Pilin (bacterial filament); Region: Pilin; pfam00114 231023010094 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 231023010095 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 231023010096 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 231023010097 DNA-binding site [nucleotide binding]; DNA binding site 231023010098 RNA-binding motif; other site 231023010099 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023010100 Walker A/P-loop; other site 231023010101 ATP binding site [chemical binding]; other site 231023010102 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 231023010103 active site 231023010104 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 231023010105 sequence-specific DNA binding site [nucleotide binding]; other site 231023010106 salt bridge; other site 231023010107 PAAR motif; Region: PAAR_motif; pfam05488 231023010108 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 231023010109 non-specific DNA binding site [nucleotide binding]; other site 231023010110 salt bridge; other site 231023010111 sequence-specific DNA binding site [nucleotide binding]; other site 231023010112 Uncharacterized conserved protein [Function unknown]; Region: COG3791 231023010113 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belong to this superfamily requires a divalent cation, such as Mg2+ or Mn2+ for their activity and contain a highly...; Region: Nudix_Hydrolase_6; cd04663 231023010114 nudix motif; other site 231023010115 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 231023010116 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 231023010117 Coenzyme A binding pocket [chemical binding]; other site 231023010118 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 231023010119 GntP family permease; Region: GntP_permease; pfam02447 231023010120 fructuronate transporter; Provisional; Region: PRK10034; cl15264 231023010121 malate dehydrogenase; Reviewed; Region: PRK06223 231023010122 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 231023010123 NAD(P) binding site [chemical binding]; other site 231023010124 dimer interface [polypeptide binding]; other site 231023010125 tetramer (dimer of dimers) interface [polypeptide binding]; other site 231023010126 substrate binding site [chemical binding]; other site 231023010127 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 231023010128 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023010129 dimer interface [polypeptide binding]; other site 231023010130 conserved gate region; other site 231023010131 putative PBP binding loops; other site 231023010132 ABC-ATPase subunit interface; other site 231023010133 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 231023010134 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023010135 substrate binding pocket [chemical binding]; other site 231023010136 membrane-bound complex binding site; other site 231023010137 hinge residues; other site 231023010138 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 231023010139 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 231023010140 cystathionine gamma-synthase; Provisional; Region: PRK08249 231023010141 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 231023010142 homodimer interface [polypeptide binding]; other site 231023010143 substrate-cofactor binding pocket; other site 231023010144 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023010145 catalytic residue [active] 231023010146 S-methylmethionine transporter; Provisional; Region: PRK11387 231023010147 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 231023010148 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 231023010149 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023010150 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 231023010151 dimerization interface [polypeptide binding]; other site 231023010152 substrate binding pocket [chemical binding]; other site 231023010153 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 231023010154 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 231023010155 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023010156 catalytic residue [active] 231023010157 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 231023010158 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 231023010159 AsnC family; Region: AsnC_trans_reg; pfam01037 231023010160 homoserine dehydrogenase; Provisional; Region: PRK06270 231023010161 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 231023010162 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 231023010163 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 231023010164 NAD(P) binding site [chemical binding]; other site 231023010165 catalytic residues [active] 231023010166 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 231023010167 homotrimer interaction site [polypeptide binding]; other site 231023010168 putative active site [active] 231023010169 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 231023010170 Sodium Bile acid symporter family; Region: SBF; cl17470 231023010171 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 231023010172 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 231023010173 dimer interface [polypeptide binding]; other site 231023010174 active site 231023010175 glycine-pyridoxal phosphate binding site [chemical binding]; other site 231023010176 folate binding site [chemical binding]; other site 231023010177 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 231023010178 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023010179 putative active site [active] 231023010180 heme pocket [chemical binding]; other site 231023010181 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023010182 putative active site [active] 231023010183 heme pocket [chemical binding]; other site 231023010184 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023010185 putative active site [active] 231023010186 heme pocket [chemical binding]; other site 231023010187 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023010188 metal binding site [ion binding]; metal-binding site 231023010189 active site 231023010190 I-site; other site 231023010191 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 231023010192 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 231023010193 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023010194 Walker A/P-loop; other site 231023010195 ATP binding site [chemical binding]; other site 231023010196 Q-loop/lid; other site 231023010197 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 231023010198 ABC transporter signature motif; other site 231023010199 Walker B; other site 231023010200 D-loop; other site 231023010201 ABC transporter; Region: ABC_tran_2; pfam12848 231023010202 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 231023010203 glutamate dehydrogenase; Provisional; Region: PRK09414 231023010204 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 231023010205 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 231023010206 NAD(P) binding site [chemical binding]; other site 231023010207 transcription elongation factor regulatory protein; Validated; Region: PRK06342 231023010208 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 231023010209 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 231023010210 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 231023010211 AAA domain; Region: AAA_32; pfam13654 231023010212 lon-related putative ATP-dependent protease; Region: lon_rel; TIGR00764 231023010213 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 231023010214 hypothetical protein; Provisional; Region: PRK05208 231023010215 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 231023010216 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 231023010217 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 231023010218 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 231023010219 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 231023010220 PhnA protein; Region: PhnA; pfam03831 231023010221 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 231023010222 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 231023010223 substrate binding pocket [chemical binding]; other site 231023010224 chain length determination region; other site 231023010225 substrate-Mg2+ binding site; other site 231023010226 catalytic residues [active] 231023010227 aspartate-rich region 1; other site 231023010228 active site lid residues [active] 231023010229 aspartate-rich region 2; other site 231023010230 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 231023010231 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 231023010232 GTPase CgtA; Reviewed; Region: obgE; PRK12298 231023010233 GTP1/OBG; Region: GTP1_OBG; pfam01018 231023010234 Obg GTPase; Region: Obg; cd01898 231023010235 G1 box; other site 231023010236 GTP/Mg2+ binding site [chemical binding]; other site 231023010237 Switch I region; other site 231023010238 G2 box; other site 231023010239 G3 box; other site 231023010240 Switch II region; other site 231023010241 G4 box; other site 231023010242 G5 box; other site 231023010243 gamma-glutamyl kinase; Provisional; Region: PRK05429 231023010244 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 231023010245 nucleotide binding site [chemical binding]; other site 231023010246 homotetrameric interface [polypeptide binding]; other site 231023010247 putative phosphate binding site [ion binding]; other site 231023010248 putative allosteric binding site; other site 231023010249 PUA domain; Region: PUA; pfam01472 231023010250 hypothetical protein; Provisional; Region: PRK10756 231023010251 CreA protein; Region: CreA; pfam05981 231023010252 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 231023010253 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 231023010254 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 231023010255 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 231023010256 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 231023010257 Coenzyme A binding pocket [chemical binding]; other site 231023010258 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 231023010259 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023010260 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 231023010261 dimerization interface [polypeptide binding]; other site 231023010262 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 231023010263 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 231023010264 FecR protein; Region: FecR; pfam04773 231023010265 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 231023010266 putative substrate translocation pore; other site 231023010267 Major Facilitator Superfamily; Region: MFS_1; pfam07690 231023010268 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 231023010269 Major Facilitator Superfamily; Region: MFS_1; pfam07690 231023010270 putative substrate translocation pore; other site 231023010271 fec operon regulator FecR; Reviewed; Region: PRK09774 231023010272 FecR protein; Region: FecR; pfam04773 231023010273 RNA polymerase sigma factor; Provisional; Region: PRK12528 231023010274 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 231023010275 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 231023010276 DNA binding residues [nucleotide binding] 231023010277 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 231023010278 endonuclease III; Region: ENDO3c; smart00478 231023010279 minor groove reading motif; other site 231023010280 helix-hairpin-helix signature motif; other site 231023010281 substrate binding pocket [chemical binding]; other site 231023010282 active site 231023010283 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 231023010284 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 231023010285 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023010286 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 231023010287 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 231023010288 DNA binding site [nucleotide binding] 231023010289 active site 231023010290 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 231023010291 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 231023010292 Mechanosensitive ion channel; Region: MS_channel; pfam00924 231023010293 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 231023010294 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 231023010295 Arabidopsis betaine aldehyde dehydrogenase 1 and 2, ALDH family 10A8 and 10A9-like; Region: ALDH_F10_BADH; cd07110 231023010296 NAD(P) binding site [chemical binding]; other site 231023010297 catalytic residues [active] 231023010298 catalytic residues [active] 231023010299 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 231023010300 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 231023010301 Na binding site [ion binding]; other site 231023010302 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 231023010303 SnoaL-like domain; Region: SnoaL_3; pfam13474 231023010304 Isochorismatase family; Region: Isochorismatase; pfam00857 231023010305 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 231023010306 catalytic triad [active] 231023010307 dimer interface [polypeptide binding]; other site 231023010308 conserved cis-peptide bond; other site 231023010309 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 231023010310 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 231023010311 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 231023010312 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 231023010313 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 231023010314 multidrug resistance protein MdtN; Provisional; Region: PRK10476 231023010315 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 231023010316 HlyD family secretion protein; Region: HlyD_3; pfam13437 231023010317 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 231023010318 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 231023010319 Sulfate transporter family; Region: Sulfate_transp; pfam00916 231023010320 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 231023010321 GTP-binding protein YchF; Reviewed; Region: PRK09601 231023010322 YchF GTPase; Region: YchF; cd01900 231023010323 G1 box; other site 231023010324 GTP/Mg2+ binding site [chemical binding]; other site 231023010325 Switch I region; other site 231023010326 G2 box; other site 231023010327 Switch II region; other site 231023010328 G3 box; other site 231023010329 G4 box; other site 231023010330 G5 box; other site 231023010331 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 231023010332 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 231023010333 putative active site [active] 231023010334 catalytic residue [active] 231023010335 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 231023010336 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 231023010337 5S rRNA interface [nucleotide binding]; other site 231023010338 CTC domain interface [polypeptide binding]; other site 231023010339 L16 interface [polypeptide binding]; other site 231023010340 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 231023010341 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 231023010342 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 231023010343 active site 231023010344 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 231023010345 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 231023010346 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 231023010347 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 231023010348 TPR motif; other site 231023010349 binding surface 231023010350 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 231023010351 binding surface 231023010352 TPR motif; other site 231023010353 TPR repeat; Region: TPR_11; pfam13414 231023010354 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 231023010355 binding surface 231023010356 TPR motif; other site 231023010357 Protein of unknown function (DUF796); Region: DUF796; pfam05638 231023010358 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 231023010359 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 231023010360 tRNA; other site 231023010361 putative tRNA binding site [nucleotide binding]; other site 231023010362 putative NADP binding site [chemical binding]; other site 231023010363 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 231023010364 peptide chain release factor 1; Validated; Region: prfA; PRK00591 231023010365 This domain is found in peptide chain release factors; Region: PCRF; smart00937 231023010366 RF-1 domain; Region: RF-1; pfam00472 231023010367 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 231023010368 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 231023010369 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 231023010370 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 231023010371 ATP binding site [chemical binding]; other site 231023010372 substrate interface [chemical binding]; other site 231023010373 glutamate racemase; Provisional; Region: PRK00865 231023010374 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 231023010375 classical (c) SDRs; Region: SDR_c; cd05233 231023010376 NAD(P) binding site [chemical binding]; other site 231023010377 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 231023010378 DNA photolyase; Region: DNA_photolyase; pfam00875 231023010379 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 231023010380 DNA binding residues [nucleotide binding] 231023010381 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 231023010382 Protein of unknown function (DUF523); Region: DUF523; pfam04463 231023010383 Uncharacterized conserved protein [Function unknown]; Region: COG3272 231023010384 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 231023010385 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 231023010386 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 231023010387 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 231023010388 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 231023010389 NAD(P) binding site [chemical binding]; other site 231023010390 active site 231023010391 ferrochelatase; Reviewed; Region: hemH; PRK00035 231023010392 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 231023010393 C-terminal domain interface [polypeptide binding]; other site 231023010394 active site 231023010395 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 231023010396 active site 231023010397 N-terminal domain interface [polypeptide binding]; other site 231023010398 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 231023010399 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 231023010400 active site 231023010401 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 231023010402 active site 231023010403 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 231023010404 malate:quinone oxidoreductase; Reviewed; Region: PRK13339 231023010405 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 231023010406 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 231023010407 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 231023010408 putative acyl-acceptor binding pocket; other site 231023010409 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 231023010410 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 231023010411 Uncharacterized conserved protein [Function unknown]; Region: COG2135 231023010412 Peptidase family M48; Region: Peptidase_M48; pfam01435 231023010413 Predicted membrane protein [Function unknown]; Region: COG2119 231023010414 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 231023010415 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 231023010416 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 231023010417 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 231023010418 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 231023010419 S-adenosylmethionine binding site [chemical binding]; other site 231023010420 glycerate dehydrogenase; Provisional; Region: PRK06487 231023010421 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 231023010422 putative ligand binding site [chemical binding]; other site 231023010423 putative NAD binding site [chemical binding]; other site 231023010424 catalytic site [active] 231023010425 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 231023010426 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 231023010427 acyl-activating enzyme (AAE) consensus motif; other site 231023010428 AMP binding site [chemical binding]; other site 231023010429 active site 231023010430 CoA binding site [chemical binding]; other site 231023010431 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 231023010432 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 231023010433 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 231023010434 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 231023010435 DNA binding residues [nucleotide binding] 231023010436 dimerization interface [polypeptide binding]; other site 231023010437 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 231023010438 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023010439 active site 231023010440 phosphorylation site [posttranslational modification] 231023010441 intermolecular recognition site; other site 231023010442 dimerization interface [polypeptide binding]; other site 231023010443 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 231023010444 binding surface 231023010445 TPR motif; other site 231023010446 TPR repeat; Region: TPR_11; pfam13414 231023010447 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 231023010448 binding surface 231023010449 TPR motif; other site 231023010450 TPR repeat; Region: TPR_11; pfam13414 231023010451 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 231023010452 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023010453 ATP binding site [chemical binding]; other site 231023010454 Mg2+ binding site [ion binding]; other site 231023010455 G-X-G motif; other site 231023010456 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 231023010457 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 231023010458 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 231023010459 ligand binding site [chemical binding]; other site 231023010460 phosphate acetyltransferase; Reviewed; Region: PRK05632 231023010461 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 231023010462 DRTGG domain; Region: DRTGG; pfam07085 231023010463 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 231023010464 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 231023010465 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 231023010466 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 231023010467 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 231023010468 catalytic residues [active] 231023010469 dimer interface [polypeptide binding]; other site 231023010470 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 231023010471 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 231023010472 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023010473 PAS domain; Region: PAS_9; pfam13426 231023010474 putative active site [active] 231023010475 heme pocket [chemical binding]; other site 231023010476 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023010477 PAS domain; Region: PAS_9; pfam13426 231023010478 putative active site [active] 231023010479 heme pocket [chemical binding]; other site 231023010480 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 231023010481 dimer interface [polypeptide binding]; other site 231023010482 putative CheW interface [polypeptide binding]; other site 231023010483 GAD-like domain; Region: GAD-like; pfam08887 231023010484 Domain of unknown function (DUF1851); Region: DUF1851; pfam08906 231023010485 GAD-like domain; Region: GAD-like; pfam08887 231023010486 Domain of unknown function (DUF1851); Region: DUF1851; pfam08906 231023010487 putative sulfate transport protein CysZ; Validated; Region: PRK04949 231023010488 thioredoxin reductase; Provisional; Region: PRK10262 231023010489 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 231023010490 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 231023010491 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 231023010492 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 231023010493 dimerization interface [polypeptide binding]; other site 231023010494 active site 231023010495 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 231023010496 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 231023010497 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 231023010498 amidase catalytic site [active] 231023010499 Zn binding residues [ion binding]; other site 231023010500 substrate binding site [chemical binding]; other site 231023010501 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 231023010502 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 231023010503 active site 231023010504 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 231023010505 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 231023010506 DNA binding site [nucleotide binding] 231023010507 domain linker motif; other site 231023010508 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 231023010509 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 231023010510 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 231023010511 active site 231023010512 phosphorylation site [posttranslational modification] 231023010513 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 231023010514 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 231023010515 dimerization domain swap beta strand [polypeptide binding]; other site 231023010516 regulatory protein interface [polypeptide binding]; other site 231023010517 active site 231023010518 regulatory phosphorylation site [posttranslational modification]; other site 231023010519 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 231023010520 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 231023010521 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 231023010522 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 231023010523 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 231023010524 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 231023010525 putative substrate binding site [chemical binding]; other site 231023010526 putative ATP binding site [chemical binding]; other site 231023010527 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 and...; Region: PTS_IIB_fructose; cd05569 231023010528 active site 231023010529 P-loop; other site 231023010530 phosphorylation site [posttranslational modification] 231023010531 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 231023010532 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 and...; Region: PTS_IIB_fructose; cd05569 231023010533 active site 231023010534 P-loop; other site 231023010535 phosphorylation site [posttranslational modification] 231023010536 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 231023010537 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 231023010538 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 231023010539 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 231023010540 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023010541 metal binding site [ion binding]; metal-binding site 231023010542 active site 231023010543 I-site; other site 231023010544 outer membrane porin, OprD family; Region: OprD; pfam03573 231023010545 Flagellin N-methylase; Region: FliB; pfam03692 231023010546 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 231023010547 Response regulator receiver domain; Region: Response_reg; pfam00072 231023010548 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023010549 active site 231023010550 phosphorylation site [posttranslational modification] 231023010551 intermolecular recognition site; other site 231023010552 dimerization interface [polypeptide binding]; other site 231023010553 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 231023010554 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 231023010555 HlyD family secretion protein; Region: HlyD_3; pfam13437 231023010556 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 231023010557 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 231023010558 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023010559 Walker A/P-loop; other site 231023010560 ATP binding site [chemical binding]; other site 231023010561 Q-loop/lid; other site 231023010562 ABC transporter signature motif; other site 231023010563 Walker B; other site 231023010564 D-loop; other site 231023010565 H-loop/switch region; other site 231023010566 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 231023010567 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 231023010568 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 231023010569 GAF domain; Region: GAF; pfam01590 231023010570 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023010571 Walker A motif; other site 231023010572 ATP binding site [chemical binding]; other site 231023010573 Walker B motif; other site 231023010574 arginine finger; other site 231023010575 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 231023010576 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 231023010577 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 231023010578 heme-binding site [chemical binding]; other site 231023010579 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 231023010580 FAD binding pocket [chemical binding]; other site 231023010581 FAD binding motif [chemical binding]; other site 231023010582 phosphate binding motif [ion binding]; other site 231023010583 beta-alpha-beta structure motif; other site 231023010584 NAD binding pocket [chemical binding]; other site 231023010585 Heme binding pocket [chemical binding]; other site 231023010586 disulfide bond formation protein B; Provisional; Region: PRK02110 231023010587 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 231023010588 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 231023010589 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 231023010590 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 231023010591 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 231023010592 D-pathway; other site 231023010593 Putative ubiquinol binding site [chemical binding]; other site 231023010594 Low-spin heme (heme b) binding site [chemical binding]; other site 231023010595 Putative water exit pathway; other site 231023010596 Binuclear center (heme o3/CuB) [ion binding]; other site 231023010597 K-pathway; other site 231023010598 Putative proton exit pathway; other site 231023010599 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 231023010600 Subunit I/III interface [polypeptide binding]; other site 231023010601 Subunit III/IV interface [polypeptide binding]; other site 231023010602 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 231023010603 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 231023010604 UbiA prenyltransferase family; Region: UbiA; pfam01040 231023010605 aminotransferase; Validated; Region: PRK08175 231023010606 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 231023010607 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023010608 homodimer interface [polypeptide binding]; other site 231023010609 catalytic residue [active] 231023010610 Flagellin N-methylase; Region: FliB; pfam03692 231023010611 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 231023010612 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 231023010613 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 231023010614 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 231023010615 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 231023010616 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 231023010617 DNA binding residues [nucleotide binding] 231023010618 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 231023010619 FecR protein; Region: FecR; pfam04773 231023010620 Secretin and TonB N terminus short domain; Region: STN; smart00965 231023010621 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 231023010622 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 231023010623 N-terminal plug; other site 231023010624 ligand-binding site [chemical binding]; other site 231023010625 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 231023010626 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 231023010627 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 231023010628 active site residue [active] 231023010629 selenophosphate synthetase; Provisional; Region: PRK00943 231023010630 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 231023010631 dimerization interface [polypeptide binding]; other site 231023010632 putative ATP binding site [chemical binding]; other site 231023010633 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 231023010634 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023010635 substrate binding pocket [chemical binding]; other site 231023010636 membrane-bound complex binding site; other site 231023010637 hinge residues; other site 231023010638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 231023010639 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023010640 Walker A/P-loop; other site 231023010641 ATP binding site [chemical binding]; other site 231023010642 Q-loop/lid; other site 231023010643 ABC transporter signature motif; other site 231023010644 Walker B; other site 231023010645 D-loop; other site 231023010646 H-loop/switch region; other site 231023010647 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 231023010648 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023010649 dimer interface [polypeptide binding]; other site 231023010650 conserved gate region; other site 231023010651 putative PBP binding loops; other site 231023010652 ABC-ATPase subunit interface; other site 231023010653 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 231023010654 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 231023010655 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 231023010656 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 231023010657 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 231023010658 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 231023010659 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 231023010660 Coenzyme A binding pocket [chemical binding]; other site 231023010661 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 231023010662 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 231023010663 dimer interface [polypeptide binding]; other site 231023010664 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 231023010665 ligand binding site [chemical binding]; other site 231023010666 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 231023010667 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 231023010668 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_3; cd06151 231023010669 homotrimer interaction site [polypeptide binding]; other site 231023010670 putative active site [active] 231023010671 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 231023010672 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 231023010673 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 231023010674 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 231023010675 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 231023010676 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 231023010677 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 231023010678 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 231023010679 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 231023010680 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 231023010681 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 231023010682 Protein export membrane protein; Region: SecD_SecF; pfam02355 231023010683 hypothetical protein; Provisional; Region: PRK11280 231023010684 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 231023010685 Transposase; Region: DDE_Tnp_ISL3; pfam01610 231023010686 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 231023010687 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 231023010688 active site 231023010689 dimerization interface [polypeptide binding]; other site 231023010690 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 231023010691 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 231023010692 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 231023010693 serine O-acetyltransferase; Region: cysE; TIGR01172 231023010694 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 231023010695 trimer interface [polypeptide binding]; other site 231023010696 active site 231023010697 substrate binding site [chemical binding]; other site 231023010698 CoA binding site [chemical binding]; other site 231023010699 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 231023010700 Rrf2 family protein; Region: rrf2_super; TIGR00738 231023010701 cysteine desulfurase; Provisional; Region: PRK14012 231023010702 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 231023010703 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 231023010704 catalytic residue [active] 231023010705 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 231023010706 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 231023010707 trimerization site [polypeptide binding]; other site 231023010708 active site 231023010709 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 231023010710 co-chaperone HscB; Provisional; Region: hscB; PRK00294 231023010711 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 231023010712 HSP70 interaction site [polypeptide binding]; other site 231023010713 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 231023010714 chaperone protein HscA; Provisional; Region: hscA; PRK05183 231023010715 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 231023010716 nucleotide binding site [chemical binding]; other site 231023010717 putative NEF/HSP70 interaction site [polypeptide binding]; other site 231023010718 SBD interface [polypeptide binding]; other site 231023010719 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 231023010720 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 231023010721 catalytic loop [active] 231023010722 iron binding site [ion binding]; other site 231023010723 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 231023010724 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 231023010725 active site 231023010726 multimer interface [polypeptide binding]; other site 231023010727 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 231023010728 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 231023010729 FeS/SAM binding site; other site 231023010730 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 231023010731 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 231023010732 TPR motif; other site 231023010733 binding surface 231023010734 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 231023010735 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 231023010736 non-specific DNA binding site [nucleotide binding]; other site 231023010737 salt bridge; other site 231023010738 sequence-specific DNA binding site [nucleotide binding]; other site 231023010739 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 231023010740 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 231023010741 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 231023010742 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 231023010743 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 231023010744 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 231023010745 dimer interface [polypeptide binding]; other site 231023010746 motif 1; other site 231023010747 active site 231023010748 motif 2; other site 231023010749 motif 3; other site 231023010750 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 231023010751 anticodon binding site; other site 231023010752 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 231023010753 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 231023010754 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 231023010755 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 231023010756 Trp docking motif [polypeptide binding]; other site 231023010757 active site 231023010758 GTP-binding protein Der; Reviewed; Region: PRK00093 231023010759 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 231023010760 G1 box; other site 231023010761 GTP/Mg2+ binding site [chemical binding]; other site 231023010762 Switch I region; other site 231023010763 G2 box; other site 231023010764 Switch II region; other site 231023010765 G3 box; other site 231023010766 G4 box; other site 231023010767 G5 box; other site 231023010768 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 231023010769 G1 box; other site 231023010770 GTP/Mg2+ binding site [chemical binding]; other site 231023010771 Switch I region; other site 231023010772 G2 box; other site 231023010773 G3 box; other site 231023010774 Switch II region; other site 231023010775 G4 box; other site 231023010776 G5 box; other site 231023010777 methionine aminotransferase; Validated; Region: PRK09082 231023010778 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 231023010779 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023010780 homodimer interface [polypeptide binding]; other site 231023010781 catalytic residue [active] 231023010782 C-N hydrolase family amidase; Provisional; Region: PRK10438 231023010783 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 231023010784 putative active site [active] 231023010785 catalytic triad [active] 231023010786 dimer interface [polypeptide binding]; other site 231023010787 multimer interface [polypeptide binding]; other site 231023010788 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 231023010789 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 231023010790 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 231023010791 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 231023010792 Flavodoxin; Region: Flavodoxin_1; pfam00258 231023010793 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_like1; cd06200 231023010794 FAD binding pocket [chemical binding]; other site 231023010795 FAD binding motif [chemical binding]; other site 231023010796 catalytic residues [active] 231023010797 NAD binding pocket [chemical binding]; other site 231023010798 phosphate binding motif [ion binding]; other site 231023010799 beta-alpha-beta structure motif; other site 231023010800 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 231023010801 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 231023010802 N-terminal plug; other site 231023010803 ligand-binding site [chemical binding]; other site 231023010804 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 231023010805 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 231023010806 Sel1 repeat; Region: Sel1; cl02723 231023010807 Sel1-like repeats; Region: SEL1; smart00671 231023010808 Sel1 repeat; Region: Sel1; cl02723 231023010809 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 231023010810 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 231023010811 dimer interface [polypeptide binding]; other site 231023010812 active site 231023010813 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 231023010814 catalytic residues [active] 231023010815 substrate binding site [chemical binding]; other site 231023010816 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 231023010817 RNA polymerase sigma factor; Reviewed; Region: PRK12527 231023010818 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 231023010819 DNA binding residues [nucleotide binding] 231023010820 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 231023010821 FecR protein; Region: FecR; pfam04773 231023010822 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 231023010823 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 231023010824 N-terminal plug; other site 231023010825 ligand-binding site [chemical binding]; other site 231023010826 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 231023010827 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 231023010828 Walker A/P-loop; other site 231023010829 ATP binding site [chemical binding]; other site 231023010830 Q-loop/lid; other site 231023010831 ABC transporter signature motif; other site 231023010832 Walker B; other site 231023010833 D-loop; other site 231023010834 H-loop/switch region; other site 231023010835 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 231023010836 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023010837 dimer interface [polypeptide binding]; other site 231023010838 conserved gate region; other site 231023010839 ABC-ATPase subunit interface; other site 231023010840 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 231023010841 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 231023010842 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023010843 dimer interface [polypeptide binding]; other site 231023010844 conserved gate region; other site 231023010845 putative PBP binding loops; other site 231023010846 ABC-ATPase subunit interface; other site 231023010847 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 231023010848 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 231023010849 G1 box; other site 231023010850 putative GEF interaction site [polypeptide binding]; other site 231023010851 GTP/Mg2+ binding site [chemical binding]; other site 231023010852 Switch I region; other site 231023010853 G2 box; other site 231023010854 G3 box; other site 231023010855 Switch II region; other site 231023010856 G4 box; other site 231023010857 G5 box; other site 231023010858 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 231023010859 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 231023010860 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 231023010861 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 231023010862 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 231023010863 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 231023010864 SnoaL-like domain; Region: SnoaL_2; pfam12680 231023010865 Helix-turn-helix domain; Region: HTH_18; pfam12833 231023010866 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023010867 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 231023010868 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 231023010869 RHS Repeat; Region: RHS_repeat; cl11982 231023010870 RHS Repeat; Region: RHS_repeat; pfam05593 231023010871 RHS protein; Region: RHS; pfam03527 231023010872 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 231023010873 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 231023010874 PAAR motif; Region: PAAR_motif; pfam05488 231023010875 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 231023010876 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 231023010877 Walker A/P-loop; other site 231023010878 ATP binding site [chemical binding]; other site 231023010879 Q-loop/lid; other site 231023010880 ABC transporter signature motif; other site 231023010881 Walker B; other site 231023010882 D-loop; other site 231023010883 H-loop/switch region; other site 231023010884 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 231023010885 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 231023010886 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 231023010887 Walker A/P-loop; other site 231023010888 ATP binding site [chemical binding]; other site 231023010889 Q-loop/lid; other site 231023010890 ABC transporter signature motif; other site 231023010891 Walker B; other site 231023010892 D-loop; other site 231023010893 H-loop/switch region; other site 231023010894 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 231023010895 dipeptide transporter; Provisional; Region: PRK10913 231023010896 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 231023010897 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023010898 putative PBP binding loops; other site 231023010899 dimer interface [polypeptide binding]; other site 231023010900 ABC-ATPase subunit interface; other site 231023010901 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 231023010902 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023010903 dimer interface [polypeptide binding]; other site 231023010904 conserved gate region; other site 231023010905 putative PBP binding loops; other site 231023010906 ABC-ATPase subunit interface; other site 231023010907 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 231023010908 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 231023010909 peptide binding site [polypeptide binding]; other site 231023010910 outer membrane porin, OprD family; Region: OprD; pfam03573 231023010911 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 231023010912 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 231023010913 peptide binding site [polypeptide binding]; other site 231023010914 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 231023010915 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 231023010916 peptide binding site [polypeptide binding]; other site 231023010917 Protein of unknown function (DUF541); Region: SIMPL; cl01077 231023010918 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 231023010919 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023010920 ATP binding site [chemical binding]; other site 231023010921 G-X-G motif; other site 231023010922 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 231023010923 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023010924 active site 231023010925 phosphorylation site [posttranslational modification] 231023010926 intermolecular recognition site; other site 231023010927 dimerization interface [polypeptide binding]; other site 231023010928 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 231023010929 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 231023010930 Beta-lactamase; Region: Beta-lactamase; pfam00144 231023010931 YceI-like domain; Region: YceI; pfam04264 231023010932 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 231023010933 PLD-like domain; Region: PLDc_2; pfam13091 231023010934 putative active site [active] 231023010935 catalytic site [active] 231023010936 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 231023010937 PLD-like domain; Region: PLDc_2; pfam13091 231023010938 putative active site [active] 231023010939 catalytic site [active] 231023010940 intracellular protease, PfpI family; Region: PfpI; TIGR01382 231023010941 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 231023010942 conserved cys residue [active] 231023010943 conserved hypothetical protein, steroid delta-isomerase-related; Region: TIGR02096 231023010944 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 231023010945 Coenzyme A binding pocket [chemical binding]; other site 231023010946 Predicted amidohydrolase [General function prediction only]; Region: COG0388 231023010947 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 231023010948 putative active site [active] 231023010949 catalytic triad [active] 231023010950 putative dimer interface [polypeptide binding]; other site 231023010951 putative fumarate hydratase; Provisional; Region: PRK15392 231023010952 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 231023010953 Fumarase C-terminus; Region: Fumerase_C; pfam05683 231023010954 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 231023010955 hypothetical protein; Provisional; Region: PRK05713 231023010956 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 231023010957 catalytic loop [active] 231023010958 iron binding site [ion binding]; other site 231023010959 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an N-terminal Iron-Sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible...; Region: FNR_N-term_Iron_sulfur_binding; cd06194 231023010960 FAD binding pocket [chemical binding]; other site 231023010961 FAD binding motif [chemical binding]; other site 231023010962 phosphate binding motif [ion binding]; other site 231023010963 beta-alpha-beta structure motif; other site 231023010964 NAD binding pocket [chemical binding]; other site 231023010965 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 231023010966 active site 231023010967 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 231023010968 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023010969 active site 231023010970 phosphorylation site [posttranslational modification] 231023010971 intermolecular recognition site; other site 231023010972 dimerization interface [polypeptide binding]; other site 231023010973 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 231023010974 DNA binding site [nucleotide binding] 231023010975 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 231023010976 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 231023010977 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023010978 dimer interface [polypeptide binding]; other site 231023010979 phosphorylation site [posttranslational modification] 231023010980 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023010981 ATP binding site [chemical binding]; other site 231023010982 Mg2+ binding site [ion binding]; other site 231023010983 G-X-G motif; other site 231023010984 Methyltransferase domain; Region: Methyltransf_23; pfam13489 231023010985 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 231023010986 S-adenosylmethionine binding site [chemical binding]; other site 231023010987 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 231023010988 multidrug efflux protein; Reviewed; Region: PRK09579 231023010989 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 231023010990 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 231023010991 HlyD family secretion protein; Region: HlyD_3; pfam13437 231023010992 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3490 231023010993 Imelysin; Region: Peptidase_M75; cl09159 231023010994 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 231023010995 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 231023010996 Imelysin; Region: Peptidase_M75; cl09159 231023010997 biofilm formation regulator HmsP; Provisional; Region: PRK11829 231023010998 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023010999 metal binding site [ion binding]; metal-binding site 231023011000 active site 231023011001 I-site; other site 231023011002 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 231023011003 superoxide dismutase; Provisional; Region: PRK10543 231023011004 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 231023011005 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 231023011006 Lysine efflux permease [General function prediction only]; Region: COG1279 231023011007 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 231023011008 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023011009 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 231023011010 dimerization interface [polypeptide binding]; other site 231023011011 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 231023011012 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 231023011013 NAD(P) binding site [chemical binding]; other site 231023011014 active site 231023011015 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 231023011016 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 231023011017 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 231023011018 FMN binding site [chemical binding]; other site 231023011019 active site 231023011020 substrate binding site [chemical binding]; other site 231023011021 catalytic residue [active] 231023011022 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 231023011023 dimerization interface [polypeptide binding]; other site 231023011024 putative DNA binding site [nucleotide binding]; other site 231023011025 putative Zn2+ binding site [ion binding]; other site 231023011026 Protein of unknown function, DUF479; Region: DUF479; cl01203 231023011027 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 231023011028 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 231023011029 putative acyl-acceptor binding pocket; other site 231023011030 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 231023011031 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 231023011032 Predicted permeases [General function prediction only]; Region: COG0679 231023011033 aromatic amino acid transporter; Provisional; Region: PRK10238 231023011034 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 231023011035 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 231023011036 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 231023011037 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 231023011038 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 231023011039 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 231023011040 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 231023011041 GatB domain; Region: GatB_Yqey; smart00845 231023011042 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 231023011043 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 231023011044 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 231023011045 rod shape-determining protein MreB; Provisional; Region: PRK13927 231023011046 MreB and similar proteins; Region: MreB_like; cd10225 231023011047 nucleotide binding site [chemical binding]; other site 231023011048 Mg binding site [ion binding]; other site 231023011049 putative protofilament interaction site [polypeptide binding]; other site 231023011050 RodZ interaction site [polypeptide binding]; other site 231023011051 rod shape-determining protein MreC; Provisional; Region: PRK13922 231023011052 rod shape-determining protein MreC; Region: MreC; pfam04085 231023011053 rod shape-determining protein MreD; Region: MreD; cl01087 231023011054 Maf-like protein; Region: Maf; pfam02545 231023011055 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 231023011056 active site 231023011057 dimer interface [polypeptide binding]; other site 231023011058 ribonuclease G; Provisional; Region: PRK11712 231023011059 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 231023011060 homodimer interface [polypeptide binding]; other site 231023011061 oligonucleotide binding site [chemical binding]; other site 231023011062 TIGR02099 family protein; Region: TIGR02099 231023011063 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 231023011064 nitrilase; Region: PLN02798 231023011065 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 231023011066 putative active site [active] 231023011067 catalytic triad [active] 231023011068 dimer interface [polypeptide binding]; other site 231023011069 protease TldD; Provisional; Region: tldD; PRK10735 231023011070 hypothetical protein; Provisional; Region: PRK05255 231023011071 peptidase PmbA; Provisional; Region: PRK11040 231023011072 fumarate hydratase; Reviewed; Region: fumC; PRK00485 231023011073 Class II fumarases; Region: Fumarase_classII; cd01362 231023011074 active site 231023011075 tetramer interface [polypeptide binding]; other site 231023011076 Protein of unknown function (DUF2753); Region: DUF2753; pfam10952 231023011077 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 231023011078 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 231023011079 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 231023011080 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 231023011081 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 231023011082 dimerization domain swap beta strand [polypeptide binding]; other site 231023011083 regulatory protein interface [polypeptide binding]; other site 231023011084 active site 231023011085 regulatory phosphorylation site [posttranslational modification]; other site 231023011086 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 231023011087 AAA domain; Region: AAA_18; pfam13238 231023011088 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 231023011089 active site 231023011090 phosphorylation site [posttranslational modification] 231023011091 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 231023011092 30S subunit binding site; other site 231023011093 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 231023011094 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 231023011095 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 231023011096 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 231023011097 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 231023011098 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 231023011099 Walker A/P-loop; other site 231023011100 ATP binding site [chemical binding]; other site 231023011101 Q-loop/lid; other site 231023011102 ABC transporter signature motif; other site 231023011103 Walker B; other site 231023011104 D-loop; other site 231023011105 H-loop/switch region; other site 231023011106 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 231023011107 OstA-like protein; Region: OstA; pfam03968 231023011108 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 231023011109 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 231023011110 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 231023011111 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 231023011112 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 231023011113 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 231023011114 putative active site [active] 231023011115 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 231023011116 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 231023011117 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 231023011118 Walker A/P-loop; other site 231023011119 ATP binding site [chemical binding]; other site 231023011120 Q-loop/lid; other site 231023011121 ABC transporter signature motif; other site 231023011122 Walker B; other site 231023011123 D-loop; other site 231023011124 H-loop/switch region; other site 231023011125 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 231023011126 Permease; Region: Permease; cl00510 231023011127 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 231023011128 mce related protein; Region: MCE; pfam02470 231023011129 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 231023011130 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 231023011131 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 231023011132 hinge; other site 231023011133 active site 231023011134 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 231023011135 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 231023011136 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 231023011137 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 231023011138 NAD binding site [chemical binding]; other site 231023011139 dimerization interface [polypeptide binding]; other site 231023011140 product binding site; other site 231023011141 substrate binding site [chemical binding]; other site 231023011142 zinc binding site [ion binding]; other site 231023011143 catalytic residues [active] 231023011144 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 231023011145 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 231023011146 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023011147 homodimer interface [polypeptide binding]; other site 231023011148 catalytic residue [active] 231023011149 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 231023011150 Transcriptional regulators [Transcription]; Region: FadR; COG2186 231023011151 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023011152 DNA-binding site [nucleotide binding]; DNA binding site 231023011153 FCD domain; Region: FCD; pfam07729 231023011154 cyanate transporter; Region: CynX; TIGR00896 231023011155 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 231023011156 putative substrate translocation pore; other site 231023011157 SnoaL-like domain; Region: SnoaL_2; pfam12680 231023011158 Nucleoid-associated protein [General function prediction only]; Region: COG3081 231023011159 nucleoid-associated protein NdpA; Validated; Region: PRK00378 231023011160 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 231023011161 IHF - DNA interface [nucleotide binding]; other site 231023011162 IHF dimer interface [polypeptide binding]; other site 231023011163 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 231023011164 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 231023011165 S-adenosylmethionine binding site [chemical binding]; other site 231023011166 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 231023011167 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 231023011168 HIGH motif; other site 231023011169 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 231023011170 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 231023011171 active site 231023011172 KMSKS motif; other site 231023011173 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 231023011174 tRNA binding surface [nucleotide binding]; other site 231023011175 anticodon binding site; other site 231023011176 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 231023011177 DNA polymerase III subunit chi; Validated; Region: PRK05728 231023011178 multifunctional aminopeptidase A; Provisional; Region: PRK00913 231023011179 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 231023011180 interface (dimer of trimers) [polypeptide binding]; other site 231023011181 Substrate-binding/catalytic site; other site 231023011182 Zn-binding sites [ion binding]; other site 231023011183 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 231023011184 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 231023011185 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 231023011186 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 231023011187 RDD family; Region: RDD; pfam06271 231023011188 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 231023011189 DNA-binding site [nucleotide binding]; DNA binding site 231023011190 RNA-binding motif; other site 231023011191 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 231023011192 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 231023011193 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 231023011194 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 231023011195 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 231023011196 glycine dehydrogenase; Provisional; Region: PRK05367 231023011197 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 231023011198 tetramer interface [polypeptide binding]; other site 231023011199 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023011200 catalytic residue [active] 231023011201 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 231023011202 tetramer interface [polypeptide binding]; other site 231023011203 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023011204 catalytic residue [active] 231023011205 glycine cleavage system protein H; Provisional; Region: PRK13380 231023011206 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 231023011207 lipoyl attachment site [posttranslational modification]; other site 231023011208 Predicted membrane protein [Function unknown]; Region: COG2259 231023011209 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 231023011210 hypothetical protein; Provisional; Region: PRK05409 231023011211 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 231023011212 RNA polymerase sigma factor; Provisional; Region: PRK12536 231023011213 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 231023011214 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 231023011215 DNA binding residues [nucleotide binding] 231023011216 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 231023011217 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 231023011218 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 231023011219 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 231023011220 putative aromatic amino acid binding site; other site 231023011221 PAS domain; Region: PAS; smart00091 231023011222 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023011223 Walker A motif; other site 231023011224 ATP binding site [chemical binding]; other site 231023011225 Walker B motif; other site 231023011226 arginine finger; other site 231023011227 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 231023011228 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 231023011229 putative substrate binding site [chemical binding]; other site 231023011230 nucleotide binding site [chemical binding]; other site 231023011231 nucleotide binding site [chemical binding]; other site 231023011232 homodimer interface [polypeptide binding]; other site 231023011233 ornithine carbamoyltransferase; Validated; Region: PRK02102 231023011234 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 231023011235 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 231023011236 arginine deiminase; Provisional; Region: PRK01388 231023011237 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 231023011238 Protein of unknown function (DUF3086); Region: DUF3086; pfam11285 231023011239 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 231023011240 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 231023011241 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl17299 231023011242 heme binding pocket [chemical binding]; other site 231023011243 heme ligand [chemical binding]; other site 231023011244 Secretin and TonB N terminus short domain; Region: STN; smart00965 231023011245 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 231023011246 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 231023011247 N-terminal plug; other site 231023011248 ligand-binding site [chemical binding]; other site 231023011249 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 231023011250 FecR protein; Region: FecR; pfam04773 231023011251 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 231023011252 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 231023011253 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 231023011254 DNA binding residues [nucleotide binding] 231023011255 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 231023011256 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 231023011257 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 231023011258 phosphogluconate dehydratase; Validated; Region: PRK09054 231023011259 6-phosphogluconate dehydratase; Region: edd; TIGR01196 231023011260 glucokinase; Provisional; Region: glk; PRK00292 231023011261 glucokinase, proteobacterial type; Region: glk; TIGR00749 231023011262 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 231023011263 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023011264 active site 231023011265 phosphorylation site [posttranslational modification] 231023011266 intermolecular recognition site; other site 231023011267 dimerization interface [polypeptide binding]; other site 231023011268 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 231023011269 DNA binding site [nucleotide binding] 231023011270 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 231023011271 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023011272 ATP binding site [chemical binding]; other site 231023011273 Mg2+ binding site [ion binding]; other site 231023011274 G-X-G motif; other site 231023011275 dimerization interface [polypeptide binding]; other site 231023011276 N-acylglucosamine 2-epimerase (GlcNAc 2-epimerase); Region: GlcNAc_2-epim; pfam07221 231023011277 putative active cleft [active] 231023011278 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 231023011279 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 231023011280 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023011281 dimer interface [polypeptide binding]; other site 231023011282 conserved gate region; other site 231023011283 putative PBP binding loops; other site 231023011284 ABC-ATPase subunit interface; other site 231023011285 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 231023011286 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023011287 dimer interface [polypeptide binding]; other site 231023011288 conserved gate region; other site 231023011289 putative PBP binding loops; other site 231023011290 ABC-ATPase subunit interface; other site 231023011291 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 231023011292 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 231023011293 Walker A/P-loop; other site 231023011294 ATP binding site [chemical binding]; other site 231023011295 Q-loop/lid; other site 231023011296 ABC transporter signature motif; other site 231023011297 Walker B; other site 231023011298 D-loop; other site 231023011299 H-loop/switch region; other site 231023011300 TOBE domain; Region: TOBE_2; pfam08402 231023011301 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 231023011302 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 231023011303 active site 231023011304 catalytic residues [active] 231023011305 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 231023011306 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 231023011307 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 231023011308 putative active site [active] 231023011309 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 231023011310 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 231023011311 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 231023011312 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 231023011313 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 231023011314 putative active site [active] 231023011315 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 231023011316 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 231023011317 active site 231023011318 intersubunit interface [polypeptide binding]; other site 231023011319 catalytic residue [active] 231023011320 2-isopropylmalate synthase; Validated; Region: PRK03739 231023011321 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 231023011322 active site 231023011323 catalytic residues [active] 231023011324 metal binding site [ion binding]; metal-binding site 231023011325 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 231023011326 Glypican; Region: Glypican; pfam01153 231023011327 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 231023011328 Peptidase family M23; Region: Peptidase_M23; pfam01551 231023011329 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 231023011330 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 231023011331 generic binding surface II; other site 231023011332 generic binding surface I; other site 231023011333 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023011334 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023011335 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 231023011336 dimerization interface [polypeptide binding]; other site 231023011337 substrate binding pocket [chemical binding]; other site 231023011338 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 231023011339 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 231023011340 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 231023011341 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 231023011342 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 231023011343 active site 231023011344 GMP synthase; Reviewed; Region: guaA; PRK00074 231023011345 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 231023011346 AMP/PPi binding site [chemical binding]; other site 231023011347 candidate oxyanion hole; other site 231023011348 catalytic triad [active] 231023011349 potential glutamine specificity residues [chemical binding]; other site 231023011350 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 231023011351 ATP Binding subdomain [chemical binding]; other site 231023011352 Ligand Binding sites [chemical binding]; other site 231023011353 Dimerization subdomain; other site 231023011354 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 231023011355 NAD:arginine ADP-ribosyltransferase; Region: ART; pfam01129 231023011356 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 231023011357 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 231023011358 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 231023011359 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 231023011360 nucleoside/Zn binding site; other site 231023011361 dimer interface [polypeptide binding]; other site 231023011362 catalytic motif [active] 231023011363 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 231023011364 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023011365 substrate binding pocket [chemical binding]; other site 231023011366 membrane-bound complex binding site; other site 231023011367 hinge residues; other site 231023011368 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 231023011369 N-acetyl-D-glucosamine binding site [chemical binding]; other site 231023011370 catalytic residue [active] 231023011371 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 231023011372 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 231023011373 dimerization interface [polypeptide binding]; other site 231023011374 ATP binding site [chemical binding]; other site 231023011375 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 231023011376 dimerization interface [polypeptide binding]; other site 231023011377 ATP binding site [chemical binding]; other site 231023011378 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 231023011379 putative active site [active] 231023011380 catalytic triad [active] 231023011381 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 231023011382 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 231023011383 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 231023011384 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 231023011385 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 231023011386 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 231023011387 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 231023011388 active site 231023011389 metal binding site [ion binding]; metal-binding site 231023011390 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 231023011391 type II secretion system protein D; Region: type_II_gspD; TIGR02517 231023011392 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 231023011393 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 231023011394 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 231023011395 type II secretion system protein E; Region: type_II_gspE; TIGR02533 231023011396 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 231023011397 Walker A motif; other site 231023011398 ATP binding site [chemical binding]; other site 231023011399 Walker B motif; other site 231023011400 type II secretion system protein F; Region: GspF; TIGR02120 231023011401 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 231023011402 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 231023011403 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 231023011404 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 231023011405 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 231023011406 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 231023011407 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 231023011408 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 231023011409 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 231023011410 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 231023011411 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 231023011412 GspL periplasmic domain; Region: GspL_C; pfam12693 231023011413 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 231023011414 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 231023011415 FAD binding pocket [chemical binding]; other site 231023011416 FAD binding motif [chemical binding]; other site 231023011417 phosphate binding motif [ion binding]; other site 231023011418 NAD binding pocket [chemical binding]; other site 231023011419 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 231023011420 Predicted transcriptional regulators [Transcription]; Region: COG1695 231023011421 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 231023011422 Transglycosylase; Region: Transgly; pfam00912 231023011423 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 231023011424 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 231023011425 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 231023011426 active site 231023011427 FMN binding site [chemical binding]; other site 231023011428 substrate binding site [chemical binding]; other site 231023011429 3Fe-4S cluster binding site [ion binding]; other site 231023011430 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 231023011431 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 231023011432 ATP binding site [chemical binding]; other site 231023011433 putative Mg++ binding site [ion binding]; other site 231023011434 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 231023011435 nucleotide binding region [chemical binding]; other site 231023011436 ATP-binding site [chemical binding]; other site 231023011437 DEAD/H associated; Region: DEAD_assoc; pfam08494 231023011438 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_31; cd04690 231023011439 nudix motif; other site 231023011440 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 231023011441 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023011442 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 231023011443 putative dimerization interface [polypeptide binding]; other site 231023011444 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 231023011445 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 231023011446 GlpM protein; Region: GlpM; pfam06942 231023011447 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 231023011448 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023011449 active site 231023011450 phosphorylation site [posttranslational modification] 231023011451 intermolecular recognition site; other site 231023011452 dimerization interface [polypeptide binding]; other site 231023011453 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023011454 Walker A motif; other site 231023011455 ATP binding site [chemical binding]; other site 231023011456 Walker B motif; other site 231023011457 arginine finger; other site 231023011458 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 231023011459 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 231023011460 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023011461 dimer interface [polypeptide binding]; other site 231023011462 phosphorylation site [posttranslational modification] 231023011463 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023011464 Mg2+ binding site [ion binding]; other site 231023011465 G-X-G motif; other site 231023011466 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 231023011467 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 231023011468 Walker A/P-loop; other site 231023011469 ATP binding site [chemical binding]; other site 231023011470 Q-loop/lid; other site 231023011471 ABC transporter signature motif; other site 231023011472 Walker B; other site 231023011473 D-loop; other site 231023011474 H-loop/switch region; other site 231023011475 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 231023011476 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023011477 dimer interface [polypeptide binding]; other site 231023011478 conserved gate region; other site 231023011479 putative PBP binding loops; other site 231023011480 ABC-ATPase subunit interface; other site 231023011481 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023011482 dimer interface [polypeptide binding]; other site 231023011483 conserved gate region; other site 231023011484 putative PBP binding loops; other site 231023011485 ABC-ATPase subunit interface; other site 231023011486 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 231023011487 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023011488 substrate binding pocket [chemical binding]; other site 231023011489 membrane-bound complex binding site; other site 231023011490 hinge residues; other site 231023011491 Leucine rich repeat; Region: LRR_8; pfam13855 231023011492 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 231023011493 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 231023011494 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 231023011495 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 231023011496 glycerol kinase; Provisional; Region: glpK; PRK00047 231023011497 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 231023011498 N- and C-terminal domain interface [polypeptide binding]; other site 231023011499 active site 231023011500 MgATP binding site [chemical binding]; other site 231023011501 catalytic site [active] 231023011502 metal binding site [ion binding]; metal-binding site 231023011503 glycerol binding site [chemical binding]; other site 231023011504 homotetramer interface [polypeptide binding]; other site 231023011505 homodimer interface [polypeptide binding]; other site 231023011506 protein IIAGlc interface [polypeptide binding]; other site 231023011507 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 231023011508 amphipathic channel; other site 231023011509 Asn-Pro-Ala signature motifs; other site 231023011510 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 231023011511 putative deacylase active site [active] 231023011512 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 231023011513 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 231023011514 Walker A/P-loop; other site 231023011515 ATP binding site [chemical binding]; other site 231023011516 Q-loop/lid; other site 231023011517 ABC transporter signature motif; other site 231023011518 Walker B; other site 231023011519 D-loop; other site 231023011520 H-loop/switch region; other site 231023011521 TOBE domain; Region: TOBE_2; pfam08402 231023011522 ornithine carbamoyltransferase; Provisional; Region: PRK00779 231023011523 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 231023011524 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 231023011525 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 231023011526 The MopB_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to...; Region: MopB_1; cd02762 231023011527 putative [Fe4-S4] binding site [ion binding]; other site 231023011528 putative molybdopterin cofactor binding site [chemical binding]; other site 231023011529 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_1; cd02782 231023011530 putative molybdopterin cofactor binding site; other site 231023011531 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 231023011532 putative GSH binding site [chemical binding]; other site 231023011533 catalytic residues [active] 231023011534 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 231023011535 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 231023011536 heme binding site [chemical binding]; other site 231023011537 ferroxidase pore; other site 231023011538 ferroxidase diiron center [ion binding]; other site 231023011539 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 231023011540 peroxidase; Provisional; Region: PRK15000 231023011541 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 231023011542 dimer interface [polypeptide binding]; other site 231023011543 decamer (pentamer of dimers) interface [polypeptide binding]; other site 231023011544 catalytic triad [active] 231023011545 peroxidatic and resolving cysteines [active] 231023011546 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 231023011547 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 231023011548 dimer interface [polypeptide binding]; other site 231023011549 catalytic site [active] 231023011550 putative active site [active] 231023011551 putative substrate binding site [chemical binding]; other site 231023011552 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 231023011553 active site 231023011554 substrate binding pocket [chemical binding]; other site 231023011555 dimer interface [polypeptide binding]; other site 231023011556 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 231023011557 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 231023011558 ligand binding site [chemical binding]; other site 231023011559 argininosuccinate synthase; Provisional; Region: PRK13820 231023011560 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 231023011561 ANP binding site [chemical binding]; other site 231023011562 Substrate Binding Site II [chemical binding]; other site 231023011563 Substrate Binding Site I [chemical binding]; other site 231023011564 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 231023011565 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023011566 active site 231023011567 phosphorylation site [posttranslational modification] 231023011568 intermolecular recognition site; other site 231023011569 dimerization interface [polypeptide binding]; other site 231023011570 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 231023011571 DNA binding residues [nucleotide binding] 231023011572 dimerization interface [polypeptide binding]; other site 231023011573 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 231023011574 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 231023011575 minor groove reading motif; other site 231023011576 helix-hairpin-helix signature motif; other site 231023011577 substrate binding pocket [chemical binding]; other site 231023011578 active site 231023011579 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 231023011580 electron transport complex, RnfABCDGE type, G subunit; Region: rnfG; TIGR01947 231023011581 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 231023011582 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 231023011583 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 231023011584 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 231023011585 active site 231023011586 HIGH motif; other site 231023011587 KMSKS motif; other site 231023011588 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 231023011589 tRNA binding surface [nucleotide binding]; other site 231023011590 anticodon binding site; other site 231023011591 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 231023011592 dimer interface [polypeptide binding]; other site 231023011593 putative tRNA-binding site [nucleotide binding]; other site 231023011594 antiporter inner membrane protein; Provisional; Region: PRK11670 231023011595 Domain of unknown function DUF59; Region: DUF59; pfam01883 231023011596 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 231023011597 Walker A motif; other site 231023011598 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 231023011599 DNA-binding site [nucleotide binding]; DNA binding site 231023011600 RNA-binding motif; other site 231023011601 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 231023011602 trimer interface [polypeptide binding]; other site 231023011603 active site 231023011604 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 231023011605 putative active site [active] 231023011606 putative metal binding site [ion binding]; other site 231023011607 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 231023011608 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 231023011609 ATP binding site [chemical binding]; other site 231023011610 putative Mg++ binding site [ion binding]; other site 231023011611 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 231023011612 nucleotide binding region [chemical binding]; other site 231023011613 ATP-binding site [chemical binding]; other site 231023011614 DEAD/H associated; Region: DEAD_assoc; pfam08494 231023011615 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 231023011616 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 231023011617 active site 231023011618 Zn binding site [ion binding]; other site 231023011619 ATP-dependent DNA ligase; Validated; Region: PRK09247 231023011620 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 231023011621 active site 231023011622 DNA binding site [nucleotide binding] 231023011623 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 231023011624 DNA binding site [nucleotide binding] 231023011625 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 231023011626 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 231023011627 Penicillin amidase; Region: Penicil_amidase; pfam01804 231023011628 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 231023011629 active site 231023011630 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 231023011631 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023011632 DNA-binding site [nucleotide binding]; DNA binding site 231023011633 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 231023011634 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023011635 homodimer interface [polypeptide binding]; other site 231023011636 catalytic residue [active] 231023011637 serine O-acetyltransferase; Region: cysE; TIGR01172 231023011638 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 231023011639 trimer interface [polypeptide binding]; other site 231023011640 active site 231023011641 substrate binding site [chemical binding]; other site 231023011642 CoA binding site [chemical binding]; other site 231023011643 alanine-tRNA ligase; Region: PLN02961 231023011644 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 231023011645 Major Facilitator Superfamily; Region: MFS_1; pfam07690 231023011646 putative substrate translocation pore; other site 231023011647 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 231023011648 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 231023011649 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 231023011650 catalytic residue [active] 231023011651 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 231023011652 hypothetical protein; Provisional; Region: PRK00183 231023011653 SEC-C motif; Region: SEC-C; pfam02810 231023011654 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 231023011655 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 231023011656 ligand binding site [chemical binding]; other site 231023011657 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 231023011658 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 231023011659 ligand binding site [chemical binding]; other site 231023011660 Protein of unknown function (DUF1145); Region: DUF1145; pfam06611 231023011661 Predicted integral membrane protein [Function unknown]; Region: COG5615 231023011662 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 231023011663 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 231023011664 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 231023011665 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 231023011666 Beta-lactamase; Region: Beta-lactamase; pfam00144 231023011667 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 231023011668 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 231023011669 ligand binding site [chemical binding]; other site 231023011670 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 231023011671 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 231023011672 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 231023011673 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 231023011674 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 231023011675 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 231023011676 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 231023011677 Predicted membrane protein [Function unknown]; Region: COG3650 231023011678 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 231023011679 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 231023011680 Walker A/P-loop; other site 231023011681 ATP binding site [chemical binding]; other site 231023011682 Q-loop/lid; other site 231023011683 ABC transporter signature motif; other site 231023011684 Walker B; other site 231023011685 D-loop; other site 231023011686 H-loop/switch region; other site 231023011687 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 231023011688 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 231023011689 Walker A/P-loop; other site 231023011690 ATP binding site [chemical binding]; other site 231023011691 Q-loop/lid; other site 231023011692 ABC transporter signature motif; other site 231023011693 Walker B; other site 231023011694 D-loop; other site 231023011695 H-loop/switch region; other site 231023011696 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 231023011697 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 231023011698 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 231023011699 TM-ABC transporter signature motif; other site 231023011700 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 231023011701 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 231023011702 TM-ABC transporter signature motif; other site 231023011703 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 231023011704 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 231023011705 dimerization interface [polypeptide binding]; other site 231023011706 ligand binding site [chemical binding]; other site 231023011707 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 231023011708 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 231023011709 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 231023011710 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 231023011711 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 231023011712 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023011713 metal binding site [ion binding]; metal-binding site 231023011714 active site 231023011715 I-site; other site 231023011716 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 231023011717 ATP-dependent helicase HepA; Validated; Region: PRK04914 231023011718 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 231023011719 ATP binding site [chemical binding]; other site 231023011720 putative Mg++ binding site [ion binding]; other site 231023011721 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 231023011722 nucleotide binding region [chemical binding]; other site 231023011723 ATP-binding site [chemical binding]; other site 231023011724 Fusaric acid resistance protein family; Region: FUSC; pfam04632 231023011725 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 231023011726 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 231023011727 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 231023011728 HlyD family secretion protein; Region: HlyD_3; pfam13437 231023011729 Protein of unknown function (DUF2025); Region: DUF2025; pfam09634 231023011730 CHASE4 domain; Region: CHASE4; pfam05228 231023011731 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023011732 PAS domain; Region: PAS_9; pfam13426 231023011733 putative active site [active] 231023011734 heme pocket [chemical binding]; other site 231023011735 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 231023011736 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023011737 metal binding site [ion binding]; metal-binding site 231023011738 active site 231023011739 I-site; other site 231023011740 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 231023011741 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 231023011742 MASE2 domain; Region: MASE2; pfam05230 231023011743 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023011744 metal binding site [ion binding]; metal-binding site 231023011745 active site 231023011746 I-site; other site 231023011747 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 231023011748 acetolactate synthase; Reviewed; Region: PRK08322 231023011749 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 231023011750 PYR/PP interface [polypeptide binding]; other site 231023011751 dimer interface [polypeptide binding]; other site 231023011752 TPP binding site [chemical binding]; other site 231023011753 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 231023011754 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 231023011755 TPP-binding site [chemical binding]; other site 231023011756 dimer interface [polypeptide binding]; other site 231023011757 Predicted amidohydrolase [General function prediction only]; Region: COG0388 231023011758 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_2; cd07580 231023011759 putative active site [active] 231023011760 catalytic triad [active] 231023011761 putative dimer interface [polypeptide binding]; other site 231023011762 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 231023011763 active site 231023011764 homotetramer interface [polypeptide binding]; other site 231023011765 homodimer interface [polypeptide binding]; other site 231023011766 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 231023011767 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 231023011768 GST_N family, unknown subfamily 4; 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_4; cd03056 231023011769 putative C-terminal domain interface [polypeptide binding]; other site 231023011770 putative GSH binding site (G-site) [chemical binding]; other site 231023011771 putative dimer interface [polypeptide binding]; other site 231023011772 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 231023011773 putative N-terminal domain interface [polypeptide binding]; other site 231023011774 putative dimer interface [polypeptide binding]; other site 231023011775 putative substrate binding pocket (H-site) [chemical binding]; other site 231023011776 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 231023011777 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 231023011778 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 231023011779 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 231023011780 FAD binding pocket [chemical binding]; other site 231023011781 FAD binding motif [chemical binding]; other site 231023011782 phosphate binding motif [ion binding]; other site 231023011783 beta-alpha-beta structure motif; other site 231023011784 NAD binding pocket [chemical binding]; other site 231023011785 Heme binding pocket [chemical binding]; other site 231023011786 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 231023011787 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 231023011788 catalytic loop [active] 231023011789 iron binding site [ion binding]; other site 231023011790 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023011791 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023011792 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_2; cd08471 231023011793 putative effector binding pocket; other site 231023011794 putative dimerization interface [polypeptide binding]; other site 231023011795 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 231023011796 active site 231023011797 catalytic residues [active] 231023011798 DctM-like transporters; Region: DctM; pfam06808 231023011799 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 231023011800 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 231023011801 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 231023011802 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 231023011803 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 231023011804 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 231023011805 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 231023011806 extended (e) SDRs; Region: SDR_e; cd08946 231023011807 active site 231023011808 active site 231023011809 substrate binding site [chemical binding]; other site 231023011810 outer membrane porin, OprD family; Region: OprD; pfam03573 231023011811 bifunctional antitoxin/transcriptional repressor RelB; Provisional; Region: PRK11235 231023011812 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 231023011813 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 231023011814 dimer interface [polypeptide binding]; other site 231023011815 putative radical transfer pathway; other site 231023011816 diiron center [ion binding]; other site 231023011817 tyrosyl radical; other site 231023011818 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 231023011819 ATP cone domain; Region: ATP-cone; pfam03477 231023011820 ATP cone domain; Region: ATP-cone; pfam03477 231023011821 Class I ribonucleotide reductase; Region: RNR_I; cd01679 231023011822 active site 231023011823 dimer interface [polypeptide binding]; other site 231023011824 catalytic residues [active] 231023011825 effector binding site; other site 231023011826 R2 peptide binding site; other site 231023011827 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 231023011828 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023011829 active site 231023011830 phosphorylation site [posttranslational modification] 231023011831 intermolecular recognition site; other site 231023011832 dimerization interface [polypeptide binding]; other site 231023011833 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 231023011834 DNA binding site [nucleotide binding] 231023011835 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023011836 dimerization interface [polypeptide binding]; other site 231023011837 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023011838 dimer interface [polypeptide binding]; other site 231023011839 phosphorylation site [posttranslational modification] 231023011840 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023011841 ATP binding site [chemical binding]; other site 231023011842 Mg2+ binding site [ion binding]; other site 231023011843 G-X-G motif; other site 231023011844 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 231023011845 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 231023011846 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 231023011847 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 231023011848 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 231023011849 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 231023011850 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023011851 active site 231023011852 phosphorylation site [posttranslational modification] 231023011853 intermolecular recognition site; other site 231023011854 dimerization interface [polypeptide binding]; other site 231023011855 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 231023011856 DNA binding site [nucleotide binding] 231023011857 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023011858 dimer interface [polypeptide binding]; other site 231023011859 phosphorylation site [posttranslational modification] 231023011860 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023011861 ATP binding site [chemical binding]; other site 231023011862 Mg2+ binding site [ion binding]; other site 231023011863 G-X-G motif; other site 231023011864 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 231023011865 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 231023011866 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 231023011867 homodimer interaction site [polypeptide binding]; other site 231023011868 cofactor binding site; other site 231023011869 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 231023011870 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 231023011871 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 231023011872 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 231023011873 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 231023011874 RNA binding surface [nucleotide binding]; other site 231023011875 Pseudouridine synthase, a subgroup of the RsuA family; Region: PSSA_1; cd02555 231023011876 active site 231023011877 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 231023011878 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 231023011879 Coenzyme A binding pocket [chemical binding]; other site 231023011880 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 231023011881 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 231023011882 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 231023011883 FeS/SAM binding site; other site 231023011884 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 231023011885 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 231023011886 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 231023011887 Predicted integral membrane protein [Function unknown]; Region: COG0392 231023011888 Uncharacterized conserved protein [Function unknown]; Region: COG2898 231023011889 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 231023011890 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 231023011891 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 231023011892 active site 231023011893 DNA polymerase IV; Validated; Region: PRK02406 231023011894 DNA binding site [nucleotide binding] 231023011895 prolyl-tRNA synthetase; Provisional; Region: PRK09194 231023011896 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 231023011897 dimer interface [polypeptide binding]; other site 231023011898 motif 1; other site 231023011899 active site 231023011900 motif 2; other site 231023011901 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 231023011902 putative deacylase active site [active] 231023011903 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 231023011904 active site 231023011905 motif 3; other site 231023011906 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 231023011907 anticodon binding site; other site 231023011908 outer membrane porin, OprD family; Region: OprD; pfam03573 231023011909 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 231023011910 nucleotide binding site/active site [active] 231023011911 HIT family signature motif; other site 231023011912 catalytic residue [active] 231023011913 hypothetical protein; Provisional; Region: PRK00295 231023011914 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 231023011915 DNA-binding site [nucleotide binding]; DNA binding site 231023011916 RNA-binding motif; other site 231023011917 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 231023011918 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 231023011919 dimerization interface [polypeptide binding]; other site 231023011920 DPS ferroxidase diiron center [ion binding]; other site 231023011921 ion pore; other site 231023011922 dihydroorotase; Validated; Region: pyrC; PRK09357 231023011923 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 231023011924 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 231023011925 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 231023011926 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 231023011927 dimer interface [polypeptide binding]; other site 231023011928 anticodon binding site; other site 231023011929 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 231023011930 homodimer interface [polypeptide binding]; other site 231023011931 motif 1; other site 231023011932 active site 231023011933 motif 2; other site 231023011934 GAD domain; Region: GAD; pfam02938 231023011935 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 231023011936 active site 231023011937 motif 3; other site 231023011938 hypothetical protein; Validated; Region: PRK00110 231023011939 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 231023011940 active site 231023011941 putative DNA-binding cleft [nucleotide binding]; other site 231023011942 dimer interface [polypeptide binding]; other site 231023011943 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 231023011944 RuvA N terminal domain; Region: RuvA_N; pfam01330 231023011945 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 231023011946 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023011947 Walker A motif; other site 231023011948 ATP binding site [chemical binding]; other site 231023011949 Walker B motif; other site 231023011950 arginine finger; other site 231023011951 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 231023011952 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 231023011953 active site 231023011954 TolQ protein; Region: tolQ; TIGR02796 231023011955 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 231023011956 TolR protein; Region: tolR; TIGR02801 231023011957 TolA protein; Region: tolA_full; TIGR02794 231023011958 TolA protein; Region: tolA_full; TIGR02794 231023011959 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 231023011960 translocation protein TolB; Provisional; Region: tolB; PRK00178 231023011961 TolB amino-terminal domain; Region: TolB_N; pfam04052 231023011962 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 231023011963 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 231023011964 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 231023011965 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 231023011966 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 231023011967 ligand binding site [chemical binding]; other site 231023011968 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 231023011969 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 231023011970 binding surface 231023011971 TPR motif; other site 231023011972 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 231023011973 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 231023011974 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 231023011975 Ligand Binding Site [chemical binding]; other site 231023011976 Cation efflux family; Region: Cation_efflux; cl00316 231023011977 Cache domain; Region: Cache_1; pfam02743 231023011978 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023011979 dimerization interface [polypeptide binding]; other site 231023011980 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 231023011981 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 231023011982 dimer interface [polypeptide binding]; other site 231023011983 putative CheW interface [polypeptide binding]; other site 231023011984 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 231023011985 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 231023011986 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 231023011987 quinolinate synthetase; Provisional; Region: PRK09375 231023011988 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 231023011989 Peptidase family M48; Region: Peptidase_M48; cl12018 231023011990 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 231023011991 CPxP motif; other site 231023011992 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 231023011993 Domain of unknown function DUF20; Region: UPF0118; pfam01594 231023011994 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 231023011995 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 231023011996 catalytic triad [active] 231023011997 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 231023011998 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 231023011999 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 231023012000 dihydrodipicolinate synthase; Region: dapA; TIGR00674 231023012001 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 231023012002 dimer interface [polypeptide binding]; other site 231023012003 active site 231023012004 catalytic residue [active] 231023012005 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 231023012006 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 231023012007 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 231023012008 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 231023012009 ATP binding site [chemical binding]; other site 231023012010 active site 231023012011 substrate binding site [chemical binding]; other site 231023012012 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 231023012013 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 231023012014 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 231023012015 active site 231023012016 DNA binding site [nucleotide binding] 231023012017 Int/Topo IB signature motif; other site 231023012018 Helix-turn-helix domain; Region: HTH_17; pfam12728 231023012019 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023012020 AAA domain; Region: AAA_22; pfam13401 231023012021 Walker A motif; other site 231023012022 ATP binding site [chemical binding]; other site 231023012023 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 231023012024 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 231023012025 Catalytic site [active] 231023012026 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 231023012027 DNA-binding interface [nucleotide binding]; DNA binding site 231023012028 Bifunctional DNA primase/polymerase, N-terminal; Region: Prim-Pol; pfam09250 231023012029 nucleotide binding site [chemical binding]; other site 231023012030 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 231023012031 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 231023012032 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 231023012033 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 231023012034 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 231023012035 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 231023012036 tandem repeat interface [polypeptide binding]; other site 231023012037 oligomer interface [polypeptide binding]; other site 231023012038 active site residues [active] 231023012039 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 231023012040 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 231023012041 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 231023012042 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 231023012043 Phage baseplate assembly protein W [General function prediction only]; Region: COG3628 231023012044 Baseplate J-like protein; Region: Baseplate_J; cl01294 231023012045 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 231023012046 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 231023012047 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 231023012048 Phage tail tube protein FII; Region: Phage_tube; pfam04985 231023012049 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 231023012050 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 231023012051 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 231023012052 Phage Tail Protein X; Region: Phage_tail_X; cl02088 231023012053 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 231023012054 Predicted chitinase [General function prediction only]; Region: COG3179 231023012055 catalytic residue [active] 231023012056 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 231023012057 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 231023012058 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 231023012059 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 231023012060 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 231023012061 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 231023012062 Bacterial SH3 domain; Region: SH3_3; pfam08239 231023012063 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 231023012064 Protein of unknown function (DUF4223); Region: DUF4223; pfam13978 231023012065 malate:quinone oxidoreductase; Validated; Region: PRK05257 231023012066 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 231023012067 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 231023012068 dimerization interface [polypeptide binding]; other site 231023012069 putative DNA binding site [nucleotide binding]; other site 231023012070 putative Zn2+ binding site [ion binding]; other site 231023012071 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 231023012072 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 231023012073 active site 231023012074 FMN binding site [chemical binding]; other site 231023012075 substrate binding site [chemical binding]; other site 231023012076 homotetramer interface [polypeptide binding]; other site 231023012077 catalytic residue [active] 231023012078 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 231023012079 hydroxyglutarate oxidase; Provisional; Region: PRK11728 231023012080 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 231023012081 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 231023012082 dimer interface [polypeptide binding]; other site 231023012083 NADP binding site [chemical binding]; other site 231023012084 catalytic residues [active] 231023012085 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 231023012086 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 231023012087 inhibitor site; inhibition site 231023012088 active site 231023012089 dimer interface [polypeptide binding]; other site 231023012090 catalytic residue [active] 231023012091 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 231023012092 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 231023012093 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 231023012094 PAS fold; Region: PAS_4; pfam08448 231023012095 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 231023012096 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023012097 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023012098 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023012099 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 231023012100 dimerization interface [polypeptide binding]; other site 231023012101 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 231023012102 MPT binding site; other site 231023012103 trimer interface [polypeptide binding]; other site 231023012104 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 231023012105 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 231023012106 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 231023012107 FeS/SAM binding site; other site 231023012108 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 231023012109 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 231023012110 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 231023012111 putative molybdopterin cofactor binding site [chemical binding]; other site 231023012112 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 231023012113 putative molybdopterin cofactor binding site; other site 231023012114 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 231023012115 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 231023012116 putative DNA binding site [nucleotide binding]; other site 231023012117 putative Zn2+ binding site [ion binding]; other site 231023012118 AsnC family; Region: AsnC_trans_reg; pfam01037 231023012119 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 231023012120 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 231023012121 homodimer interface [polypeptide binding]; other site 231023012122 substrate-cofactor binding pocket; other site 231023012123 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023012124 catalytic residue [active] 231023012125 Protein of unknown function (DUF465); Region: DUF465; pfam04325 231023012126 putative metal dependent hydrolase; Provisional; Region: PRK11598 231023012127 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 231023012128 Sulfatase; Region: Sulfatase; pfam00884 231023012129 ribonuclease D; Region: rnd; TIGR01388 231023012130 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 231023012131 catalytic site [active] 231023012132 putative active site [active] 231023012133 putative substrate binding site [chemical binding]; other site 231023012134 HRDC domain; Region: HRDC; pfam00570 231023012135 YcgL domain; Region: YcgL; pfam05166 231023012136 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 231023012137 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 231023012138 NAD binding site [chemical binding]; other site 231023012139 ligand binding site [chemical binding]; other site 231023012140 catalytic site [active] 231023012141 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 231023012142 putative FMN binding site [chemical binding]; other site 231023012143 hypothetical protein; Provisional; Region: PRK05170 231023012144 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 231023012145 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 231023012146 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 231023012147 active site 231023012148 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 231023012149 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 231023012150 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 231023012151 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 231023012152 putative active site [active] 231023012153 putative dimer interface [polypeptide binding]; other site 231023012154 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 231023012155 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023012156 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023012157 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 231023012158 dimerization interface [polypeptide binding]; other site 231023012159 benzoate transport; Region: 2A0115; TIGR00895 231023012160 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 231023012161 putative substrate translocation pore; other site 231023012162 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 231023012163 putative active site [active] 231023012164 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 231023012165 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 231023012166 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 231023012167 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 231023012168 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 231023012169 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023012170 Walker A motif; other site 231023012171 ATP binding site [chemical binding]; other site 231023012172 Walker B motif; other site 231023012173 arginine finger; other site 231023012174 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 231023012175 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 231023012176 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 231023012177 dimer interface [polypeptide binding]; other site 231023012178 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023012179 catalytic residue [active] 231023012180 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 231023012181 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 231023012182 EamA-like transporter family; Region: EamA; pfam00892 231023012183 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 231023012184 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 231023012185 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; pfam06315 231023012186 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 231023012187 S1 domain; Region: S1_2; pfam13509 231023012188 S1 domain; Region: S1_2; pfam13509 231023012189 CsbD-like; Region: CsbD; pfam05532 231023012190 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 231023012191 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 231023012192 active site 231023012193 catalytic residues [active] 231023012194 metal binding site [ion binding]; metal-binding site 231023012195 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 231023012196 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 231023012197 SnoaL-like domain; Region: SnoaL_3; pfam13474 231023012198 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 231023012199 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 231023012200 putative hydrophobic ligand binding site [chemical binding]; other site 231023012201 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 231023012202 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 231023012203 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 231023012204 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 231023012205 dimer interaction site [polypeptide binding]; other site 231023012206 substrate-binding tunnel; other site 231023012207 active site 231023012208 catalytic site [active] 231023012209 substrate binding site [chemical binding]; other site 231023012210 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 231023012211 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 231023012212 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 231023012213 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12492 231023012214 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 231023012215 acyl-activating enzyme (AAE) consensus motif; other site 231023012216 putative AMP binding site [chemical binding]; other site 231023012217 putative active site [active] 231023012218 putative CoA binding site [chemical binding]; other site 231023012219 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 231023012220 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 231023012221 acyl-activating enzyme (AAE) consensus motif; other site 231023012222 putative AMP binding site [chemical binding]; other site 231023012223 putative active site [active] 231023012224 putative CoA binding site [chemical binding]; other site 231023012225 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 231023012226 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 231023012227 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 231023012228 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 231023012229 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 231023012230 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 231023012231 ATP binding site [chemical binding]; other site 231023012232 putative Mg++ binding site [ion binding]; other site 231023012233 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 231023012234 nucleotide binding region [chemical binding]; other site 231023012235 ATP-binding site [chemical binding]; other site 231023012236 Helicase associated domain (HA2); Region: HA2; pfam04408 231023012237 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 231023012238 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 231023012239 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 231023012240 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 231023012241 dimer interface [polypeptide binding]; other site 231023012242 active site 231023012243 CoA binding pocket [chemical binding]; other site 231023012244 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 231023012245 Protein of unknown function, DUF482; Region: DUF482; pfam04339 231023012246 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 231023012247 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 231023012248 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 231023012249 Walker A/P-loop; other site 231023012250 ATP binding site [chemical binding]; other site 231023012251 Q-loop/lid; other site 231023012252 ABC transporter signature motif; other site 231023012253 Walker B; other site 231023012254 D-loop; other site 231023012255 H-loop/switch region; other site 231023012256 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 231023012257 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 231023012258 substrate binding site [chemical binding]; other site 231023012259 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 231023012260 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 231023012261 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023012262 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023012263 LysR substrate binding domain; Region: LysR_substrate; pfam03466 231023012264 dimerization interface [polypeptide binding]; other site 231023012265 Protein of unknown function (DUF3316); Region: DUF3316; pfam11777 231023012266 azoreductase; Reviewed; Region: PRK00170 231023012267 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 231023012268 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 231023012269 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 231023012270 ABC transporter signature motif; other site 231023012271 Walker B; other site 231023012272 D-loop; other site 231023012273 H-loop/switch region; other site 231023012274 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 231023012275 Mechanosensitive ion channel; Region: MS_channel; pfam00924 231023012276 helicase 45; Provisional; Region: PTZ00424 231023012277 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 231023012278 ATP binding site [chemical binding]; other site 231023012279 Mg++ binding site [ion binding]; other site 231023012280 motif III; other site 231023012281 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 231023012282 nucleotide binding region [chemical binding]; other site 231023012283 ATP-binding site [chemical binding]; other site 231023012284 Protein of unknown function (DUF497); Region: DUF497; pfam04365 231023012285 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 231023012286 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 231023012287 EamA-like transporter family; Region: EamA; pfam00892 231023012288 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 231023012289 putative substrate translocation pore; other site 231023012290 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023012291 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023012292 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 231023012293 putative dimerization interface [polypeptide binding]; other site 231023012294 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u3; cd11479 231023012295 Na binding site [ion binding]; other site 231023012296 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 231023012297 agmatinase; Region: agmatinase; TIGR01230 231023012298 oligomer interface [polypeptide binding]; other site 231023012299 putative active site [active] 231023012300 Mn binding site [ion binding]; other site 231023012301 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023012302 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023012303 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 231023012304 dimerization interface [polypeptide binding]; other site 231023012305 PAS domain; Region: PAS_9; pfam13426 231023012306 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023012307 putative active site [active] 231023012308 heme pocket [chemical binding]; other site 231023012309 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 231023012310 dimer interface [polypeptide binding]; other site 231023012311 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 231023012312 putative CheW interface [polypeptide binding]; other site 231023012313 DTW domain; Region: DTW; cl01221 231023012314 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 231023012315 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 231023012316 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 231023012317 yecA family protein; Region: ygfB_yecA; TIGR02292 231023012318 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 231023012319 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 231023012320 ATP binding site [chemical binding]; other site 231023012321 putative Mg++ binding site [ion binding]; other site 231023012322 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 231023012323 nucleotide binding region [chemical binding]; other site 231023012324 ATP-binding site [chemical binding]; other site 231023012325 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 231023012326 HRDC domain; Region: HRDC; pfam00570 231023012327 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 231023012328 MarR family; Region: MarR_2; pfam12802 231023012329 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 231023012330 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 231023012331 active site 231023012332 nucleophile elbow; other site 231023012333 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 231023012334 Surface antigen; Region: Bac_surface_Ag; pfam01103 231023012335 Uncharacterized protein conserved in bacteria [Posttranslational modification, protein turnover, chaperones]; Region: COG3526 231023012336 EamA-like transporter family; Region: EamA; pfam00892 231023012337 Cupin domain; Region: Cupin_2; cl17218 231023012338 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023012339 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 231023012340 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023012341 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 231023012342 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 231023012343 putative active site [active] 231023012344 putative metal binding site [ion binding]; other site 231023012345 Protein of unknown function (DUF962); Region: DUF962; pfam06127 231023012346 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 231023012347 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 231023012348 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 231023012349 putative FMN binding site [chemical binding]; other site 231023012350 two-component sensor protein; Provisional; Region: cpxA; PRK09470 231023012351 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 231023012352 dimerization interface [polypeptide binding]; other site 231023012353 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023012354 ATP binding site [chemical binding]; other site 231023012355 Mg2+ binding site [ion binding]; other site 231023012356 G-X-G motif; other site 231023012357 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 231023012358 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 231023012359 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023012360 active site 231023012361 phosphorylation site [posttranslational modification] 231023012362 intermolecular recognition site; other site 231023012363 dimerization interface [polypeptide binding]; other site 231023012364 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 231023012365 DNA binding site [nucleotide binding] 231023012366 YciI-like protein; Reviewed; Region: PRK11370 231023012367 intracellular septation protein A; Reviewed; Region: PRK00259 231023012368 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 231023012369 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 231023012370 active site 231023012371 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 231023012372 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 231023012373 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 231023012374 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 231023012375 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 231023012376 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 231023012377 RNA binding surface [nucleotide binding]; other site 231023012378 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 231023012379 probable active site [active] 231023012380 aromatic amino acid transporter; Provisional; Region: PRK10238 231023012381 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 231023012382 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023012383 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 231023012384 dimerization interface [polypeptide binding]; other site 231023012385 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 231023012386 FAD binding domain; Region: FAD_binding_4; pfam01565 231023012387 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 231023012388 major facilitator superfamily transporter; Provisional; Region: PRK05122 231023012389 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 231023012390 putative substrate translocation pore; other site 231023012391 The BURPS668_1122 family of deaminases; Region: Toxin-deaminase; pfam14424 231023012392 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 231023012393 aromatic arch; other site 231023012394 DCoH dimer interaction site [polypeptide binding]; other site 231023012395 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 231023012396 DCoH tetramer interaction site [polypeptide binding]; other site 231023012397 substrate binding site [chemical binding]; other site 231023012398 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 231023012399 cofactor binding site; other site 231023012400 metal binding site [ion binding]; metal-binding site 231023012401 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 231023012402 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 231023012403 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023012404 putative active site [active] 231023012405 heme pocket [chemical binding]; other site 231023012406 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023012407 Walker A motif; other site 231023012408 ATP binding site [chemical binding]; other site 231023012409 Walker B motif; other site 231023012410 arginine finger; other site 231023012411 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 231023012412 acetyl-CoA synthetase; Provisional; Region: PRK00174 231023012413 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 231023012414 active site 231023012415 CoA binding site [chemical binding]; other site 231023012416 acyl-activating enzyme (AAE) consensus motif; other site 231023012417 AMP binding site [chemical binding]; other site 231023012418 acetate binding site [chemical binding]; other site 231023012419 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 231023012420 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023012421 substrate binding pocket [chemical binding]; other site 231023012422 membrane-bound complex binding site; other site 231023012423 hinge residues; other site 231023012424 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 231023012425 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023012426 dimer interface [polypeptide binding]; other site 231023012427 conserved gate region; other site 231023012428 putative PBP binding loops; other site 231023012429 ABC-ATPase subunit interface; other site 231023012430 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023012431 dimer interface [polypeptide binding]; other site 231023012432 conserved gate region; other site 231023012433 putative PBP binding loops; other site 231023012434 ABC-ATPase subunit interface; other site 231023012435 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 231023012436 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 231023012437 Walker A/P-loop; other site 231023012438 ATP binding site [chemical binding]; other site 231023012439 Q-loop/lid; other site 231023012440 ABC transporter signature motif; other site 231023012441 Walker B; other site 231023012442 D-loop; other site 231023012443 H-loop/switch region; other site 231023012444 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 231023012445 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 231023012446 conserved cys residue [active] 231023012447 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023012448 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023012449 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 231023012450 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 231023012451 inhibitor-cofactor binding pocket; inhibition site 231023012452 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023012453 catalytic residue [active] 231023012454 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 231023012455 arginine/ornithine succinyltransferase, alpha subunit; Region: arg_AOST_alph; TIGR03245 231023012456 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 231023012457 arginine N-succinyltransferase; Region: arg_catab_AstA; TIGR03244 231023012458 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 231023012459 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 231023012460 NAD(P) binding site [chemical binding]; other site 231023012461 catalytic residues [active] 231023012462 succinylarginine dihydrolase; Provisional; Region: PRK13281 231023012463 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 231023012464 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 231023012465 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 231023012466 putative active site [active] 231023012467 Zn binding site [ion binding]; other site 231023012468 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 231023012469 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 231023012470 motif 1; other site 231023012471 active site 231023012472 motif 2; other site 231023012473 motif 3; other site 231023012474 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 231023012475 DHHA1 domain; Region: DHHA1; pfam02272 231023012476 aspartate kinase; Reviewed; Region: PRK06635 231023012477 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 231023012478 putative nucleotide binding site [chemical binding]; other site 231023012479 putative catalytic residues [active] 231023012480 putative Mg ion binding site [ion binding]; other site 231023012481 putative aspartate binding site [chemical binding]; other site 231023012482 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 231023012483 putative allosteric regulatory site; other site 231023012484 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 231023012485 putative allosteric regulatory residue; other site 231023012486 carbon storage regulator; Provisional; Region: PRK01712 231023012487 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 231023012488 MgtE intracellular N domain; Region: MgtE_N; smart00924 231023012489 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 231023012490 Divalent cation transporter; Region: MgtE; pfam01769 231023012491 Arc-like DNA binding domain; Region: Arc; pfam03869 231023012492 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 231023012493 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 231023012494 active site 231023012495 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 231023012496 Spore germination protein; Region: Spore_permease; cl17796 231023012497 AAA domain; Region: AAA_32; pfam13654 231023012498 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023012499 PAS fold; Region: PAS_3; pfam08447 231023012500 putative active site [active] 231023012501 heme pocket [chemical binding]; other site 231023012502 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 231023012503 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023012504 metal binding site [ion binding]; metal-binding site 231023012505 active site 231023012506 I-site; other site 231023012507 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 231023012508 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 231023012509 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 231023012510 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 231023012511 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 231023012512 E3 interaction surface; other site 231023012513 lipoyl attachment site [posttranslational modification]; other site 231023012514 e3 binding domain; Region: E3_binding; pfam02817 231023012515 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 231023012516 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 231023012517 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 231023012518 alpha subunit interface [polypeptide binding]; other site 231023012519 TPP binding site [chemical binding]; other site 231023012520 heterodimer interface [polypeptide binding]; other site 231023012521 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 231023012522 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 231023012523 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 231023012524 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 231023012525 tetramer interface [polypeptide binding]; other site 231023012526 TPP-binding site [chemical binding]; other site 231023012527 heterodimer interface [polypeptide binding]; other site 231023012528 phosphorylation loop region [posttranslational modification] 231023012529 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 231023012530 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 231023012531 putative DNA binding site [nucleotide binding]; other site 231023012532 putative Zn2+ binding site [ion binding]; other site 231023012533 AsnC family; Region: AsnC_trans_reg; pfam01037 231023012534 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 231023012535 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 231023012536 putative MFS family transporter protein; Provisional; Region: PRK03633 231023012537 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 231023012538 putative substrate translocation pore; other site 231023012539 Flagellar regulator YcgR; Region: YcgR; pfam07317 231023012540 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 231023012541 PilZ domain; Region: PilZ; pfam07238 231023012542 FlgN protein; Region: FlgN; pfam05130 231023012543 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 231023012544 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 231023012545 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 231023012546 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 231023012547 Response regulator receiver domain; Region: Response_reg; pfam00072 231023012548 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023012549 active site 231023012550 phosphorylation site [posttranslational modification] 231023012551 intermolecular recognition site; other site 231023012552 dimerization interface [polypeptide binding]; other site 231023012553 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 231023012554 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 231023012555 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 231023012556 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 231023012557 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 231023012558 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 231023012559 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 231023012560 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 231023012561 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 231023012562 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 231023012563 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 231023012564 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 231023012565 flagellar hook protein FlgE; Validated; Region: flgE; PRK05841 231023012566 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 231023012567 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 231023012568 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 231023012569 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 231023012570 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 231023012571 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 231023012572 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 231023012573 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 231023012574 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 231023012575 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 231023012576 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 231023012577 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 231023012578 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 231023012579 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 231023012580 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 231023012581 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 231023012582 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 231023012583 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 231023012584 flagellar hook-associated protein FlgL; Provisional; Region: flgL; PRK12717 231023012585 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 231023012586 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 231023012587 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 231023012588 active site 231023012589 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 231023012590 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 231023012591 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 231023012592 active site 231023012593 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 231023012594 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 231023012595 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 231023012596 active site 231023012597 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 231023012598 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 231023012599 substrate binding site; other site 231023012600 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 231023012601 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 231023012602 NAD(P) binding site [chemical binding]; other site 231023012603 active site 231023012604 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 231023012605 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 231023012606 inhibitor-cofactor binding pocket; inhibition site 231023012607 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023012608 catalytic residue [active] 231023012609 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 231023012610 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 231023012611 Probable Catalytic site; other site 231023012612 metal-binding site 231023012613 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 231023012614 NeuB family; Region: NeuB; pfam03102 231023012615 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 231023012616 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 231023012617 PYR/PP interface [polypeptide binding]; other site 231023012618 dimer interface [polypeptide binding]; other site 231023012619 TPP binding site [chemical binding]; other site 231023012620 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 231023012621 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 231023012622 TPP-binding site [chemical binding]; other site 231023012623 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 231023012624 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 231023012625 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 231023012626 NAD(P) binding site [chemical binding]; other site 231023012627 active site 231023012628 Methyltransferase domain; Region: Methyltransf_23; pfam13489 231023012629 Methyltransferase domain; Region: Methyltransf_12; pfam08242 231023012630 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 231023012631 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 231023012632 dimer interface [polypeptide binding]; other site 231023012633 active site 231023012634 CoA binding pocket [chemical binding]; other site 231023012635 flagellin; Provisional; Region: PRK12802 231023012636 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 231023012637 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 231023012638 FlaG protein; Region: FlaG; pfam03646 231023012639 flagellar capping protein; Reviewed; Region: fliD; PRK08032 231023012640 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 231023012641 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 231023012642 flagellar protein FliS; Validated; Region: fliS; PRK05685 231023012643 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 231023012644 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 231023012645 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023012646 Walker A motif; other site 231023012647 ATP binding site [chemical binding]; other site 231023012648 Walker B motif; other site 231023012649 arginine finger; other site 231023012650 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 231023012651 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 231023012652 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023012653 putative active site [active] 231023012654 heme pocket [chemical binding]; other site 231023012655 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023012656 dimer interface [polypeptide binding]; other site 231023012657 phosphorylation site [posttranslational modification] 231023012658 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023012659 ATP binding site [chemical binding]; other site 231023012660 Mg2+ binding site [ion binding]; other site 231023012661 G-X-G motif; other site 231023012662 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 231023012663 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023012664 active site 231023012665 phosphorylation site [posttranslational modification] 231023012666 intermolecular recognition site; other site 231023012667 dimerization interface [polypeptide binding]; other site 231023012668 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023012669 Walker A motif; other site 231023012670 ATP binding site [chemical binding]; other site 231023012671 Walker B motif; other site 231023012672 arginine finger; other site 231023012673 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 231023012674 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 231023012675 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 231023012676 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 231023012677 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 231023012678 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 231023012679 MgtE intracellular N domain; Region: MgtE_N; cl15244 231023012680 FliG C-terminal domain; Region: FliG_C; pfam01706 231023012681 flagellar assembly protein H; Validated; Region: fliH; PRK05687 231023012682 Flagellar assembly protein FliH; Region: FliH; pfam02108 231023012683 flagellum-specific ATP synthase; Validated; Region: fliI; PRK05688 231023012684 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 231023012685 Walker A motif/ATP binding site; other site 231023012686 Walker B motif; other site 231023012687 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 231023012688 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 231023012689 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 231023012690 anti sigma factor interaction site; other site 231023012691 regulatory phosphorylation site [posttranslational modification]; other site 231023012692 Response regulator receiver domain; Region: Response_reg; pfam00072 231023012693 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023012694 active site 231023012695 phosphorylation site [posttranslational modification] 231023012696 intermolecular recognition site; other site 231023012697 dimerization interface [polypeptide binding]; other site 231023012698 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 231023012699 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 231023012700 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023012701 ATP binding site [chemical binding]; other site 231023012702 Mg2+ binding site [ion binding]; other site 231023012703 G-X-G motif; other site 231023012704 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 231023012705 putative binding surface; other site 231023012706 active site 231023012707 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 231023012708 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 231023012709 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 231023012710 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 231023012711 flagellar motor switch protein; Validated; Region: fliN; PRK05698 231023012712 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 231023012713 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 231023012714 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 231023012715 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 231023012716 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 231023012717 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 231023012718 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 231023012719 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 231023012720 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 231023012721 ATP-grasp domain; Region: ATP-grasp_4; cl17255 231023012722 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 231023012723 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 231023012724 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 231023012725 catalytic residue [active] 231023012726 cystathionine beta-lyase; Provisional; Region: PRK07050 231023012727 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 231023012728 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 231023012729 catalytic residue [active] 231023012730 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 231023012731 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 231023012732 B12 binding site [chemical binding]; other site 231023012733 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 231023012734 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 231023012735 ATP-grasp domain; Region: ATP-grasp_4; cl17255 231023012736 Transcriptional regulators [Transcription]; Region: GntR; COG1802 231023012737 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023012738 DNA-binding site [nucleotide binding]; DNA binding site 231023012739 FCD domain; Region: FCD; pfam07729 231023012740 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 231023012741 FHIPEP family; Region: FHIPEP; pfam00771 231023012742 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 231023012743 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 231023012744 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 231023012745 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 231023012746 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 231023012747 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 231023012748 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 231023012749 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 231023012750 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 231023012751 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 231023012752 DNA binding residues [nucleotide binding] 231023012753 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 231023012754 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023012755 active site 231023012756 phosphorylation site [posttranslational modification] 231023012757 intermolecular recognition site; other site 231023012758 dimerization interface [polypeptide binding]; other site 231023012759 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 231023012760 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 231023012761 putative binding surface; other site 231023012762 active site 231023012763 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 231023012764 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 231023012765 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023012766 ATP binding site [chemical binding]; other site 231023012767 Mg2+ binding site [ion binding]; other site 231023012768 G-X-G motif; other site 231023012769 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 231023012770 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 231023012771 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023012772 active site 231023012773 phosphorylation site [posttranslational modification] 231023012774 intermolecular recognition site; other site 231023012775 dimerization interface [polypeptide binding]; other site 231023012776 CheB methylesterase; Region: CheB_methylest; pfam01339 231023012777 flagellar motor protein; Reviewed; Region: motC; PRK09109 231023012778 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 231023012779 flagellar motor protein MotD; Reviewed; Region: PRK09038 231023012780 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 231023012781 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 231023012782 ligand binding site [chemical binding]; other site 231023012783 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 231023012784 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 231023012785 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 231023012786 Magnesium ion binding site [ion binding]; other site 231023012787 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 231023012788 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 231023012789 putative CheA interaction surface; other site 231023012790 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 231023012791 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 231023012792 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 231023012793 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 231023012794 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 231023012795 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 231023012796 Walker A/P-loop; other site 231023012797 ATP binding site [chemical binding]; other site 231023012798 Q-loop/lid; other site 231023012799 ABC transporter signature motif; other site 231023012800 Walker B; other site 231023012801 D-loop; other site 231023012802 H-loop/switch region; other site 231023012803 heme exporter protein CcmB; Region: ccmB; TIGR01190 231023012804 heme exporter protein CcmC; Region: ccmC; TIGR01191 231023012805 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 231023012806 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 231023012807 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 231023012808 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 231023012809 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 231023012810 catalytic residues [active] 231023012811 central insert; other site 231023012812 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 231023012813 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 231023012814 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 231023012815 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 231023012816 binding surface 231023012817 TPR motif; other site 231023012818 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 231023012819 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 231023012820 NAD binding site [chemical binding]; other site 231023012821 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 231023012822 Uncharacterized conserved protein [Function unknown]; Region: COG3791 231023012823 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 231023012824 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 231023012825 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 231023012826 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 231023012827 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 231023012828 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 231023012829 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 231023012830 Na binding site [ion binding]; other site 231023012831 putative substrate binding site [chemical binding]; other site 231023012832 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 231023012833 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 231023012834 AsnC family; Region: AsnC_trans_reg; pfam01037 231023012835 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 231023012836 EamA-like transporter family; Region: EamA; pfam00892 231023012837 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 231023012838 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 231023012839 S-adenosylmethionine binding site [chemical binding]; other site 231023012840 Mechanosensitive ion channel; Region: MS_channel; pfam00924 231023012841 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 231023012842 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 231023012843 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 231023012844 peptide synthase; Validated; Region: PRK05691 231023012845 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 231023012846 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 231023012847 Ion transport protein; Region: Ion_trans; pfam00520 231023012848 Ion channel; Region: Ion_trans_2; pfam07885 231023012849 Double zinc ribbon; Region: DZR; pfam12773 231023012850 Urea transporter; Region: UT; pfam03253 231023012851 pyruvate kinase; Provisional; Region: PRK06247 231023012852 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 231023012853 domain interfaces; other site 231023012854 active site 231023012855 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 231023012856 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 231023012857 MOFRL family; Region: MOFRL; pfam05161 231023012858 tartronate semialdehyde reductase; Provisional; Region: PRK15059 231023012859 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 231023012860 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 231023012861 glyoxylate carboligase; Provisional; Region: PRK11269 231023012862 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 231023012863 PYR/PP interface [polypeptide binding]; other site 231023012864 dimer interface [polypeptide binding]; other site 231023012865 TPP binding site [chemical binding]; other site 231023012866 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 231023012867 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 231023012868 TPP-binding site [chemical binding]; other site 231023012869 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 231023012870 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 231023012871 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 231023012872 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 231023012873 Protein of unknown function (DUF808); Region: DUF808; pfam05661 231023012874 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 231023012875 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 231023012876 xanthine permease; Region: pbuX; TIGR03173 231023012877 Predicted membrane protein [Function unknown]; Region: COG3748 231023012878 Protein of unknown function (DUF989); Region: DUF989; pfam06181 231023012879 Cytochrome c; Region: Cytochrom_C; pfam00034 231023012880 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 231023012881 ureidoglycolate hydrolase; Provisional; Region: PRK03606 231023012882 OHCU decarboxylase; Region: UHCUDC; TIGR03164 231023012883 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 231023012884 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 231023012885 active site 231023012886 catalytic site [active] 231023012887 tetramer interface [polypeptide binding]; other site 231023012888 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 231023012889 active site 231023012890 homotetramer interface [polypeptide binding]; other site 231023012891 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 231023012892 Transcriptional regulators [Transcription]; Region: GntR; COG1802 231023012893 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023012894 DNA-binding site [nucleotide binding]; DNA binding site 231023012895 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 231023012896 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 231023012897 amphipathic channel; other site 231023012898 Asn-Pro-Ala signature motifs; other site 231023012899 guanine deaminase; Provisional; Region: PRK09228 231023012900 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 231023012901 active site 231023012902 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 231023012903 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 231023012904 XdhC Rossmann domain; Region: XdhC_C; pfam13478 231023012905 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 231023012906 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 231023012907 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 231023012908 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 231023012909 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 231023012910 catalytic loop [active] 231023012911 iron binding site [ion binding]; other site 231023012912 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 231023012913 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 231023012914 Transcriptional regulators [Transcription]; Region: GntR; COG1802 231023012915 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023012916 DNA-binding site [nucleotide binding]; DNA binding site 231023012917 FCD domain; Region: FCD; cl11656 231023012918 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 231023012919 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 231023012920 Walker A/P-loop; other site 231023012921 ATP binding site [chemical binding]; other site 231023012922 Q-loop/lid; other site 231023012923 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 231023012924 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 231023012925 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 231023012926 ABC transporter signature motif; other site 231023012927 Walker B; other site 231023012928 D-loop; other site 231023012929 H-loop/switch region; other site 231023012930 cell division protein ZipA; Reviewed; Region: zipA; PRK00269 231023012931 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 231023012932 FtsZ protein binding site [polypeptide binding]; other site 231023012933 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 231023012934 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 231023012935 nucleotide binding pocket [chemical binding]; other site 231023012936 K-X-D-G motif; other site 231023012937 catalytic site [active] 231023012938 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 231023012939 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 231023012940 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 231023012941 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 231023012942 Dimer interface [polypeptide binding]; other site 231023012943 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 231023012944 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 231023012945 DNA binding residues [nucleotide binding] 231023012946 putative dimer interface [polypeptide binding]; other site 231023012947 putative metal binding residues [ion binding]; other site 231023012948 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 231023012949 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 231023012950 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023012951 substrate binding pocket [chemical binding]; other site 231023012952 membrane-bound complex binding site; other site 231023012953 hinge residues; other site 231023012954 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 231023012955 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023012956 Walker A motif; other site 231023012957 ATP binding site [chemical binding]; other site 231023012958 Walker B motif; other site 231023012959 arginine finger; other site 231023012960 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 231023012961 hypothetical protein; Validated; Region: PRK00153 231023012962 recombination protein RecR; Reviewed; Region: recR; PRK00076 231023012963 RecR protein; Region: RecR; pfam02132 231023012964 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 231023012965 putative active site [active] 231023012966 putative metal-binding site [ion binding]; other site 231023012967 tetramer interface [polypeptide binding]; other site 231023012968 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 231023012969 active site 231023012970 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 231023012971 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 231023012972 ligand binding site [chemical binding]; other site 231023012973 flexible hinge region; other site 231023012974 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 231023012975 putative switch regulator; other site 231023012976 non-specific DNA interactions [nucleotide binding]; other site 231023012977 DNA binding site [nucleotide binding] 231023012978 sequence specific DNA binding site [nucleotide binding]; other site 231023012979 putative cAMP binding site [chemical binding]; other site 231023012980 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 231023012981 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 231023012982 FeS/SAM binding site; other site 231023012983 HemN C-terminal domain; Region: HemN_C; pfam06969 231023012984 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 231023012985 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 231023012986 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 231023012987 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 231023012988 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 231023012989 metal-binding site [ion binding] 231023012990 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 231023012991 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 231023012992 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 231023012993 FixH; Region: FixH; pfam05751 231023012994 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 231023012995 4Fe-4S binding domain; Region: Fer4_5; pfam12801 231023012996 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 231023012997 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 231023012998 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 231023012999 Cytochrome c; Region: Cytochrom_C; pfam00034 231023013000 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 231023013001 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 231023013002 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 231023013003 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 231023013004 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 231023013005 Low-spin heme binding site [chemical binding]; other site 231023013006 Putative water exit pathway; other site 231023013007 Binuclear center (active site) [active] 231023013008 Putative proton exit pathway; other site 231023013009 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 231023013010 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 231023013011 Cytochrome c; Region: Cytochrom_C; pfam00034 231023013012 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 231023013013 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 231023013014 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 231023013015 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 231023013016 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 231023013017 Low-spin heme binding site [chemical binding]; other site 231023013018 Putative water exit pathway; other site 231023013019 Binuclear center (active site) [active] 231023013020 Putative proton exit pathway; other site 231023013021 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 231023013022 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 231023013023 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 231023013024 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 231023013025 active site 231023013026 catalytic site [active] 231023013027 substrate binding site [chemical binding]; other site 231023013028 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 231023013029 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023013030 substrate binding pocket [chemical binding]; other site 231023013031 membrane-bound complex binding site; other site 231023013032 hinge residues; other site 231023013033 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 231023013034 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 231023013035 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 231023013036 DNA binding residues [nucleotide binding] 231023013037 peptide synthase; Validated; Region: PRK05691 231023013038 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 231023013039 acyl-activating enzyme (AAE) consensus motif; other site 231023013040 active site 231023013041 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 231023013042 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 231023013043 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 231023013044 acyl-activating enzyme (AAE) consensus motif; other site 231023013045 AMP binding site [chemical binding]; other site 231023013046 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 231023013047 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 231023013048 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 231023013049 acyl-activating enzyme (AAE) consensus motif; other site 231023013050 AMP binding site [chemical binding]; other site 231023013051 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 231023013052 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 231023013053 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 231023013054 acyl-activating enzyme (AAE) consensus motif; other site 231023013055 AMP binding site [chemical binding]; other site 231023013056 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 231023013057 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 231023013058 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023013059 Walker A/P-loop; other site 231023013060 ATP binding site [chemical binding]; other site 231023013061 Q-loop/lid; other site 231023013062 ABC transporter signature motif; other site 231023013063 Walker B; other site 231023013064 D-loop; other site 231023013065 H-loop/switch region; other site 231023013066 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 231023013067 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 231023013068 dimerization domain [polypeptide binding]; other site 231023013069 dimer interface [polypeptide binding]; other site 231023013070 catalytic residues [active] 231023013071 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 231023013072 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 231023013073 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 231023013074 catalytic residues [active] 231023013075 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 231023013076 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 231023013077 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 231023013078 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 231023013079 DsbD alpha interface [polypeptide binding]; other site 231023013080 catalytic residues [active] 231023013081 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 231023013082 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 231023013083 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 231023013084 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 231023013085 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 231023013086 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 231023013087 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 231023013088 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 231023013089 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 231023013090 Cytochrome c; Region: Cytochrom_C; pfam00034 231023013091 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 231023013092 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 231023013093 XdhC Rossmann domain; Region: XdhC_C; pfam13478 231023013094 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 231023013095 metal-binding site 231023013096 GAD-like domain; Region: GAD-like; pfam08887 231023013097 Domain of unknown function (DUF1851); Region: DUF1851; pfam08906 231023013098 GAD-like domain; Region: GAD-like; pfam08887 231023013099 Domain of unknown function (DUF1851); Region: DUF1851; pfam08906 231023013100 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 231023013101 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 231023013102 DNA binding site [nucleotide binding] 231023013103 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 231023013104 phosphorylation site [posttranslational modification] 231023013105 GAD-like domain; Region: GAD-like; pfam08887 231023013106 Domain of unknown function (DUF1851); Region: DUF1851; pfam08906 231023013107 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 231023013108 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023013109 active site 231023013110 phosphorylation site [posttranslational modification] 231023013111 intermolecular recognition site; other site 231023013112 dimerization interface [polypeptide binding]; other site 231023013113 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 231023013114 DNA binding site [nucleotide binding] 231023013115 sensor protein QseC; Provisional; Region: PRK10337 231023013116 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023013117 dimer interface [polypeptide binding]; other site 231023013118 phosphorylation site [posttranslational modification] 231023013119 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023013120 ATP binding site [chemical binding]; other site 231023013121 G-X-G motif; other site 231023013122 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 231023013123 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 231023013124 inhibitor-cofactor binding pocket; inhibition site 231023013125 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023013126 catalytic residue [active] 231023013127 SCP-2 sterol transfer family; Region: SCP2; pfam02036 231023013128 Cupin-like domain; Region: Cupin_8; pfam13621 231023013129 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 231023013130 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 231023013131 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 231023013132 catalytic residue [active] 231023013133 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 231023013134 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 231023013135 active site 231023013136 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 231023013137 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 231023013138 RNA polymerase sigma factor; Reviewed; Region: PRK12527 231023013139 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 231023013140 DNA binding residues [nucleotide binding] 231023013141 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 231023013142 metabolite-proton symporter; Region: 2A0106; TIGR00883 231023013143 Motility quorum-sensing regulator (MqsR); Region: MqsR; cd12869 231023013144 peptide binding site [polypeptide binding]; other site 231023013145 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 231023013146 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 231023013147 toxin interface [polypeptide binding]; other site 231023013148 Zn binding site [ion binding]; other site 231023013149 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 231023013150 non-specific DNA binding site [nucleotide binding]; other site 231023013151 salt bridge; other site 231023013152 sequence-specific DNA binding site [nucleotide binding]; other site 231023013153 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 231023013154 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 231023013155 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 231023013156 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 231023013157 Ligand binding site [chemical binding]; other site 231023013158 Electron transfer flavoprotein domain; Region: ETF; pfam01012 231023013159 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 231023013160 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 231023013161 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 231023013162 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023013163 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 231023013164 substrate binding pocket [chemical binding]; other site 231023013165 membrane-bound complex binding site; other site 231023013166 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 231023013167 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 231023013168 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 231023013169 ligand binding site [chemical binding]; other site 231023013170 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 231023013171 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023013172 DNA-binding site [nucleotide binding]; DNA binding site 231023013173 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 231023013174 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023013175 homodimer interface [polypeptide binding]; other site 231023013176 catalytic residue [active] 231023013177 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 231023013178 putative lipid binding site [chemical binding]; other site 231023013179 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 231023013180 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 231023013181 dimer interface [polypeptide binding]; other site 231023013182 active site 231023013183 citrylCoA binding site [chemical binding]; other site 231023013184 NADH binding [chemical binding]; other site 231023013185 cationic pore residues; other site 231023013186 oxalacetate/citrate binding site [chemical binding]; other site 231023013187 coenzyme A binding site [chemical binding]; other site 231023013188 catalytic triad [active] 231023013189 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 231023013190 Iron-sulfur protein interface; other site 231023013191 proximal quinone binding site [chemical binding]; other site 231023013192 SdhD (CybS) interface [polypeptide binding]; other site 231023013193 proximal heme binding site [chemical binding]; other site 231023013194 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 231023013195 SdhC subunit interface [polypeptide binding]; other site 231023013196 proximal heme binding site [chemical binding]; other site 231023013197 cardiolipin binding site; other site 231023013198 Iron-sulfur protein interface; other site 231023013199 proximal quinone binding site [chemical binding]; other site 231023013200 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 231023013201 L-aspartate oxidase; Provisional; Region: PRK06175 231023013202 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 231023013203 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 231023013204 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 231023013205 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 231023013206 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 231023013207 TPP-binding site [chemical binding]; other site 231023013208 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 231023013209 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 231023013210 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 231023013211 E3 interaction surface; other site 231023013212 lipoyl attachment site [posttranslational modification]; other site 231023013213 e3 binding domain; Region: E3_binding; pfam02817 231023013214 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 231023013215 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 231023013216 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 231023013217 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 231023013218 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 231023013219 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 231023013220 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 231023013221 CoA-ligase; Region: Ligase_CoA; pfam00549 231023013222 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 231023013223 CoA binding domain; Region: CoA_binding; pfam02629 231023013224 CoA-ligase; Region: Ligase_CoA; pfam00549 231023013225 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 231023013226 Predicted membrane protein [Function unknown]; Region: COG3821 231023013227 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 231023013228 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 231023013229 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 231023013230 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 231023013231 peptide synthase; Provisional; Region: PRK12467 231023013232 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 231023013233 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 231023013234 acyl-activating enzyme (AAE) consensus motif; other site 231023013235 AMP binding site [chemical binding]; other site 231023013236 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 231023013237 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 231023013238 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 231023013239 acyl-activating enzyme (AAE) consensus motif; other site 231023013240 AMP binding site [chemical binding]; other site 231023013241 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 231023013242 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 231023013243 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 231023013244 acyl-activating enzyme (AAE) consensus motif; other site 231023013245 AMP binding site [chemical binding]; other site 231023013246 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 231023013247 Condensation domain; Region: Condensation; pfam00668 231023013248 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 231023013249 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 231023013250 Condensation domain; Region: Condensation; pfam00668 231023013251 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 231023013252 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 231023013253 acyl-activating enzyme (AAE) consensus motif; other site 231023013254 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 231023013255 AMP binding site [chemical binding]; other site 231023013256 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 231023013257 Condensation domain; Region: Condensation; pfam00668 231023013258 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 231023013259 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 231023013260 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 231023013261 acyl-activating enzyme (AAE) consensus motif; other site 231023013262 AMP binding site [chemical binding]; other site 231023013263 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 231023013264 Condensation domain; Region: Condensation; pfam00668 231023013265 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 231023013266 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 231023013267 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 231023013268 acyl-activating enzyme (AAE) consensus motif; other site 231023013269 AMP binding site [chemical binding]; other site 231023013270 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 231023013271 Condensation domain; Region: Condensation; pfam00668 231023013272 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 231023013273 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 231023013274 Condensation domain; Region: Condensation; pfam00668 231023013275 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 231023013276 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 231023013277 acyl-activating enzyme (AAE) consensus motif; other site 231023013278 AMP binding site [chemical binding]; other site 231023013279 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 231023013280 Condensation domain; Region: Condensation; pfam00668 231023013281 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 231023013282 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 231023013283 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 231023013284 Condensation domain; Region: Condensation; pfam00668 231023013285 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 231023013286 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 231023013287 acyl-activating enzyme (AAE) consensus motif; other site 231023013288 AMP binding site [chemical binding]; other site 231023013289 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 231023013290 Secretin and TonB N terminus short domain; Region: STN; pfam07660 231023013291 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 231023013292 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 231023013293 N-terminal plug; other site 231023013294 ligand-binding site [chemical binding]; other site 231023013295 Uncharacterized conserved protein [Function unknown]; Region: COG1262 231023013296 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 231023013297 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 231023013298 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 231023013299 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 231023013300 acyl-activating enzyme (AAE) consensus motif; other site 231023013301 AMP binding site [chemical binding]; other site 231023013302 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 231023013303 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 231023013304 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 231023013305 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 231023013306 Walker A/P-loop; other site 231023013307 ATP binding site [chemical binding]; other site 231023013308 Q-loop/lid; other site 231023013309 ABC transporter signature motif; other site 231023013310 Walker B; other site 231023013311 D-loop; other site 231023013312 H-loop/switch region; other site 231023013313 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 231023013314 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 231023013315 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 231023013316 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 231023013317 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 231023013318 Walker A/P-loop; other site 231023013319 ATP binding site [chemical binding]; other site 231023013320 Q-loop/lid; other site 231023013321 ABC transporter signature motif; other site 231023013322 Walker B; other site 231023013323 D-loop; other site 231023013324 H-loop/switch region; other site 231023013325 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 231023013326 FtsX-like permease family; Region: FtsX; pfam02687 231023013327 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 231023013328 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 231023013329 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 231023013330 HlyD family secretion protein; Region: HlyD_3; pfam13437 231023013331 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 231023013332 CoenzymeA binding site [chemical binding]; other site 231023013333 subunit interaction site [polypeptide binding]; other site 231023013334 PHB binding site; other site 231023013335 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 231023013336 CoenzymeA binding site [chemical binding]; other site 231023013337 subunit interaction site [polypeptide binding]; other site 231023013338 PHB binding site; other site 231023013339 heat shock protein 90; Provisional; Region: PRK05218 231023013340 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023013341 ATP binding site [chemical binding]; other site 231023013342 Mg2+ binding site [ion binding]; other site 231023013343 G-X-G motif; other site 231023013344 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 231023013345 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 231023013346 Pirin-related protein [General function prediction only]; Region: COG1741 231023013347 Pirin; Region: Pirin; pfam02678 231023013348 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 231023013349 Amidohydrolase; Region: Amidohydro_2; pfam04909 231023013350 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 231023013351 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 231023013352 dimer interface [polypeptide binding]; other site 231023013353 active site 231023013354 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 231023013355 active site 1 [active] 231023013356 dimer interface [polypeptide binding]; other site 231023013357 active site 2 [active] 231023013358 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023013359 dimerization interface [polypeptide binding]; other site 231023013360 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023013361 dimer interface [polypeptide binding]; other site 231023013362 phosphorylation site [posttranslational modification] 231023013363 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023013364 ATP binding site [chemical binding]; other site 231023013365 Mg2+ binding site [ion binding]; other site 231023013366 G-X-G motif; other site 231023013367 Response regulator receiver domain; Region: Response_reg; pfam00072 231023013368 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023013369 active site 231023013370 phosphorylation site [posttranslational modification] 231023013371 intermolecular recognition site; other site 231023013372 dimerization interface [polypeptide binding]; other site 231023013373 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 231023013374 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 231023013375 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 231023013376 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 231023013377 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 231023013378 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 231023013379 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 231023013380 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 231023013381 catalytic core [active] 231023013382 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 231023013383 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 231023013384 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 231023013385 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 231023013386 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 231023013387 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 231023013388 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 231023013389 Soluble P-type ATPase [General function prediction only]; Region: COG4087 231023013390 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 231023013391 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 231023013392 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 231023013393 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 231023013394 Ligand Binding Site [chemical binding]; other site 231023013395 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 231023013396 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023013397 dimer interface [polypeptide binding]; other site 231023013398 phosphorylation site [posttranslational modification] 231023013399 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023013400 ATP binding site [chemical binding]; other site 231023013401 Mg2+ binding site [ion binding]; other site 231023013402 G-X-G motif; other site 231023013403 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 231023013404 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023013405 active site 231023013406 phosphorylation site [posttranslational modification] 231023013407 intermolecular recognition site; other site 231023013408 dimerization interface [polypeptide binding]; other site 231023013409 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 231023013410 DNA binding site [nucleotide binding] 231023013411 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023013412 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023013413 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 231023013414 dimerization interface [polypeptide binding]; other site 231023013415 hypothetical protein; Provisional; Region: PRK06149 231023013416 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; cl17270 231023013417 active site 231023013418 ATP binding site [chemical binding]; other site 231023013419 substrate binding site [chemical binding]; other site 231023013420 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 231023013421 inhibitor-cofactor binding pocket; inhibition site 231023013422 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023013423 catalytic residue [active] 231023013424 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 231023013425 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 231023013426 N-terminal plug; other site 231023013427 ligand-binding site [chemical binding]; other site 231023013428 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 231023013429 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 231023013430 Walker A/P-loop; other site 231023013431 ATP binding site [chemical binding]; other site 231023013432 Q-loop/lid; other site 231023013433 ABC transporter signature motif; other site 231023013434 Walker B; other site 231023013435 D-loop; other site 231023013436 H-loop/switch region; other site 231023013437 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 231023013438 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 231023013439 Walker A/P-loop; other site 231023013440 ATP binding site [chemical binding]; other site 231023013441 Q-loop/lid; other site 231023013442 ABC transporter signature motif; other site 231023013443 Walker B; other site 231023013444 D-loop; other site 231023013445 H-loop/switch region; other site 231023013446 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 231023013447 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 231023013448 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023013449 dimer interface [polypeptide binding]; other site 231023013450 conserved gate region; other site 231023013451 putative PBP binding loops; other site 231023013452 ABC-ATPase subunit interface; other site 231023013453 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 231023013454 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023013455 dimer interface [polypeptide binding]; other site 231023013456 conserved gate region; other site 231023013457 putative PBP binding loops; other site 231023013458 ABC-ATPase subunit interface; other site 231023013459 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 231023013460 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 231023013461 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 231023013462 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 231023013463 MltD lipid attachment motif; Region: MLTD_N; pfam06474 231023013464 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 231023013465 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 231023013466 N-acetyl-D-glucosamine binding site [chemical binding]; other site 231023013467 catalytic residue [active] 231023013468 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 231023013469 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 231023013470 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 231023013471 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 231023013472 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 231023013473 RNA/DNA hybrid binding site [nucleotide binding]; other site 231023013474 active site 231023013475 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 231023013476 active site 231023013477 catalytic site [active] 231023013478 substrate binding site [chemical binding]; other site 231023013479 arginine decarboxylase; Provisional; Region: PRK15029 231023013480 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 231023013481 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 231023013482 homodimer interface [polypeptide binding]; other site 231023013483 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023013484 catalytic residue [active] 231023013485 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 231023013486 Predicted flavoprotein [General function prediction only]; Region: COG0431 231023013487 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 231023013488 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 231023013489 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 231023013490 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 231023013491 DNA binding residues [nucleotide binding] 231023013492 dimerization interface [polypeptide binding]; other site 231023013493 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 231023013494 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 231023013495 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 231023013496 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 231023013497 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 231023013498 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 231023013499 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 231023013500 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 231023013501 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 231023013502 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 231023013503 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 231023013504 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 231023013505 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 231023013506 4Fe-4S binding domain; Region: Fer4; pfam00037 231023013507 4Fe-4S binding domain; Region: Fer4; pfam00037 231023013508 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 231023013509 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 231023013510 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 231023013511 catalytic loop [active] 231023013512 iron binding site [ion binding]; other site 231023013513 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 231023013514 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 231023013515 [4Fe-4S] binding site [ion binding]; other site 231023013516 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 231023013517 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 231023013518 SLBB domain; Region: SLBB; pfam10531 231023013519 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 231023013520 NADH dehydrogenase subunit E; Validated; Region: PRK07539 231023013521 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 231023013522 putative dimer interface [polypeptide binding]; other site 231023013523 [2Fe-2S] cluster binding site [ion binding]; other site 231023013524 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 231023013525 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 231023013526 NADH dehydrogenase subunit D; Validated; Region: PRK06075 231023013527 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 231023013528 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 231023013529 YhhN-like protein; Region: YhhN; pfam07947 231023013530 isocitrate lyase; Provisional; Region: PRK15063 231023013531 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 231023013532 tetramer interface [polypeptide binding]; other site 231023013533 active site 231023013534 Mg2+/Mn2+ binding site [ion binding]; other site 231023013535 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 231023013536 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 231023013537 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 231023013538 active site 231023013539 catalytic residues [active] 231023013540 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 231023013541 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 231023013542 Sulfate transporter family; Region: Sulfate_transp; pfam00916 231023013543 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 231023013544 elongation factor G; Reviewed; Region: PRK00007 231023013545 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 231023013546 G1 box; other site 231023013547 putative GEF interaction site [polypeptide binding]; other site 231023013548 GTP/Mg2+ binding site [chemical binding]; other site 231023013549 Switch I region; other site 231023013550 G2 box; other site 231023013551 G3 box; other site 231023013552 Switch II region; other site 231023013553 G4 box; other site 231023013554 G5 box; other site 231023013555 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 231023013556 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 231023013557 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 231023013558 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 231023013559 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 231023013560 inhibitor-cofactor binding pocket; inhibition site 231023013561 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023013562 catalytic residue [active] 231023013563 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 231023013564 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023013565 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 231023013566 dimerization interface [polypeptide binding]; other site 231023013567 substrate binding pocket [chemical binding]; other site 231023013568 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 231023013569 Spore germination protein; Region: Spore_permease; cl17796 231023013570 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 231023013571 CoenzymeA binding site [chemical binding]; other site 231023013572 subunit interaction site [polypeptide binding]; other site 231023013573 PHB binding site; other site 231023013574 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 231023013575 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 231023013576 C-terminal domain interface [polypeptide binding]; other site 231023013577 GSH binding site (G-site) [chemical binding]; other site 231023013578 dimer interface [polypeptide binding]; other site 231023013579 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 231023013580 dimer interface [polypeptide binding]; other site 231023013581 N-terminal domain interface [polypeptide binding]; other site 231023013582 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 231023013583 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 231023013584 Uncharacterized conserved protein [Function unknown]; Region: COG3189 231023013585 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 231023013586 Coenzyme A binding pocket [chemical binding]; other site 231023013587 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 231023013588 sequence-specific DNA binding site [nucleotide binding]; other site 231023013589 salt bridge; other site 231023013590 response regulator; Provisional; Region: PRK09483 231023013591 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023013592 active site 231023013593 phosphorylation site [posttranslational modification] 231023013594 intermolecular recognition site; other site 231023013595 dimerization interface [polypeptide binding]; other site 231023013596 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 231023013597 DNA binding residues [nucleotide binding] 231023013598 dimerization interface [polypeptide binding]; other site 231023013599 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 231023013600 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 231023013601 GIY-YIG motif/motif A; other site 231023013602 active site 231023013603 catalytic site [active] 231023013604 putative DNA binding site [nucleotide binding]; other site 231023013605 metal binding site [ion binding]; metal-binding site 231023013606 UvrB/uvrC motif; Region: UVR; pfam02151 231023013607 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 231023013608 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 231023013609 DNA binding site [nucleotide binding] 231023013610 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 231023013611 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 231023013612 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 231023013613 catalytic residues [active] 231023013614 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 231023013615 DNA binding residues [nucleotide binding] 231023013616 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 231023013617 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 231023013618 non-specific DNA binding site [nucleotide binding]; other site 231023013619 salt bridge; other site 231023013620 sequence-specific DNA binding site [nucleotide binding]; other site 231023013621 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 231023013622 Catalytic site [active] 231023013623 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 231023013624 non-specific DNA binding site [nucleotide binding]; other site 231023013625 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 231023013626 salt bridge; other site 231023013627 sequence-specific DNA binding site [nucleotide binding]; other site 231023013628 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 231023013629 Catalytic site [active] 231023013630 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 231023013631 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 231023013632 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 231023013633 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 231023013634 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 231023013635 carboxyltransferase (CT) interaction site; other site 231023013636 biotinylation site [posttranslational modification]; other site 231023013637 gamma-carboxygeranoyl-CoA hydratase; Validated; Region: PRK05674 231023013638 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 231023013639 substrate binding site [chemical binding]; other site 231023013640 oxyanion hole (OAH) forming residues; other site 231023013641 trimer interface [polypeptide binding]; other site 231023013642 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 231023013643 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 231023013644 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 231023013645 isovaleryl-CoA dehydrogenase; Region: PLN02519 231023013646 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 231023013647 substrate binding site [chemical binding]; other site 231023013648 FAD binding site [chemical binding]; other site 231023013649 catalytic base [active] 231023013650 AMP-binding domain protein; Validated; Region: PRK08315 231023013651 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 231023013652 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 231023013653 acyl-activating enzyme (AAE) consensus motif; other site 231023013654 putative AMP binding site [chemical binding]; other site 231023013655 putative active site [active] 231023013656 putative CoA binding site [chemical binding]; other site 231023013657 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 231023013658 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 231023013659 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 231023013660 active site 231023013661 homodimer interface [polypeptide binding]; other site 231023013662 catalytic site [active] 231023013663 acceptor binding site [chemical binding]; other site 231023013664 trehalose synthase; Region: treS_nterm; TIGR02456 231023013665 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 231023013666 active site 231023013667 catalytic site [active] 231023013668 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 231023013669 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 231023013670 glycogen branching enzyme; Provisional; Region: PRK05402 231023013671 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 231023013672 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 231023013673 active site 231023013674 catalytic site [active] 231023013675 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 231023013676 Autotransporter beta-domain; Region: Autotransporter; smart00869 231023013677 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 231023013678 putative catalytic site [active] 231023013679 putative metal binding site [ion binding]; other site 231023013680 putative phosphate binding site [ion binding]; other site 231023013681 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 231023013682 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 231023013683 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 231023013684 active site 231023013685 catalytic site [active] 231023013686 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 231023013687 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 231023013688 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 231023013689 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 231023013690 active site 231023013691 catalytic site [active] 231023013692 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 231023013693 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 231023013694 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 231023013695 catalytic site [active] 231023013696 active site 231023013697 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 231023013698 glycogen synthase; Provisional; Region: glgA; PRK00654 231023013699 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 231023013700 ADP-binding pocket [chemical binding]; other site 231023013701 homodimer interface [polypeptide binding]; other site 231023013702 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 231023013703 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 231023013704 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 231023013705 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 231023013706 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 231023013707 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 231023013708 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 231023013709 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 231023013710 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 231023013711 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 231023013712 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 231023013713 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 231023013714 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 231023013715 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 231023013716 homodimer interface [polypeptide binding]; other site 231023013717 active site 231023013718 FMN binding site [chemical binding]; other site 231023013719 substrate binding site [chemical binding]; other site 231023013720 4Fe-4S binding domain; Region: Fer4_6; pfam12837 231023013721 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 231023013722 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 231023013723 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 231023013724 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 231023013725 phenylhydantoinase; Validated; Region: PRK08323 231023013726 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 231023013727 tetramer interface [polypeptide binding]; other site 231023013728 active site 231023013729 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 231023013730 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 231023013731 Na binding site [ion binding]; other site 231023013732 putative substrate binding site [chemical binding]; other site 231023013733 allantoate amidohydrolase; Reviewed; Region: PRK12893 231023013734 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 231023013735 active site 231023013736 metal binding site [ion binding]; metal-binding site 231023013737 dimer interface [polypeptide binding]; other site 231023013738 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 231023013739 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 231023013740 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 231023013741 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 231023013742 enoyl-CoA hydratase; Provisional; Region: PRK06142 231023013743 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 231023013744 substrate binding site [chemical binding]; other site 231023013745 oxyanion hole (OAH) forming residues; other site 231023013746 trimer interface [polypeptide binding]; other site 231023013747 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 231023013748 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 231023013749 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 231023013750 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 231023013751 putative NADH binding site [chemical binding]; other site 231023013752 putative active site [active] 231023013753 nudix motif; other site 231023013754 putative metal binding site [ion binding]; other site 231023013755 hypothetical protein; Provisional; Region: PRK10621 231023013756 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 231023013757 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 231023013758 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 231023013759 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 231023013760 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 231023013761 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 231023013762 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 231023013763 DNA topoisomerase III; Provisional; Region: PRK07726 231023013764 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 231023013765 active site 231023013766 putative interdomain interaction site [polypeptide binding]; other site 231023013767 putative metal-binding site [ion binding]; other site 231023013768 putative nucleotide binding site [chemical binding]; other site 231023013769 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 231023013770 domain I; other site 231023013771 DNA binding groove [nucleotide binding] 231023013772 phosphate binding site [ion binding]; other site 231023013773 domain II; other site 231023013774 domain III; other site 231023013775 nucleotide binding site [chemical binding]; other site 231023013776 catalytic site [active] 231023013777 domain IV; other site 231023013778 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 231023013779 Coenzyme A binding pocket [chemical binding]; other site 231023013780 Uncharacterized conserved protein [Function unknown]; Region: COG2850 231023013781 Cupin domain; Region: Cupin_2; cl17218 231023013782 adenylosuccinate lyase; Provisional; Region: PRK09285 231023013783 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 231023013784 tetramer interface [polypeptide binding]; other site 231023013785 active site 231023013786 putative lysogenization regulator; Reviewed; Region: PRK00218 231023013787 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 231023013788 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 231023013789 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 231023013790 nudix motif; other site 231023013791 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 231023013792 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 231023013793 isocitrate dehydrogenase; Validated; Region: PRK07362 231023013794 isocitrate dehydrogenase; Reviewed; Region: PRK07006 231023013795 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 231023013796 DNA-binding site [nucleotide binding]; DNA binding site 231023013797 RNA-binding motif; other site 231023013798 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 231023013799 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 231023013800 Clp amino terminal domain; Region: Clp_N; pfam02861 231023013801 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023013802 Walker A motif; other site 231023013803 ATP binding site [chemical binding]; other site 231023013804 Walker B motif; other site 231023013805 arginine finger; other site 231023013806 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023013807 Walker A motif; other site 231023013808 ATP binding site [chemical binding]; other site 231023013809 Walker B motif; other site 231023013810 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 231023013811 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 231023013812 rRNA binding site [nucleotide binding]; other site 231023013813 predicted 30S ribosome binding site; other site 231023013814 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 231023013815 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 231023013816 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 231023013817 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 231023013818 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 231023013819 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 231023013820 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 231023013821 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 231023013822 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 231023013823 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 231023013824 recombination factor protein RarA; Reviewed; Region: PRK13342 231023013825 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023013826 Walker A motif; other site 231023013827 ATP binding site [chemical binding]; other site 231023013828 Walker B motif; other site 231023013829 arginine finger; other site 231023013830 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 231023013831 camphor resistance protein CrcB; Provisional; Region: PRK14234 231023013832 seryl-tRNA synthetase; Provisional; Region: PRK05431 231023013833 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 231023013834 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 231023013835 dimer interface [polypeptide binding]; other site 231023013836 active site 231023013837 motif 1; other site 231023013838 motif 2; other site 231023013839 motif 3; other site 231023013840 siroheme synthase; Provisional; Region: cysG; PRK10637 231023013841 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 231023013842 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 231023013843 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 231023013844 active site 231023013845 SAM binding site [chemical binding]; other site 231023013846 homodimer interface [polypeptide binding]; other site 231023013847 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 231023013848 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 231023013849 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 231023013850 putative dimer interface [polypeptide binding]; other site 231023013851 N-terminal domain interface [polypeptide binding]; other site 231023013852 putative substrate binding pocket (H-site) [chemical binding]; other site 231023013853 hypothetical protein; Validated; Region: PRK09071 231023013854 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 231023013855 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 231023013856 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 231023013857 sulfur relay protein TusB/DsrH; Region: sulf_tusB_dsrH; TIGR03011 231023013858 sulfur relay protein TusC; Validated; Region: PRK00211 231023013859 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 231023013860 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 231023013861 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 231023013862 YccA-like proteins; Region: YccA_like; cd10433 231023013863 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 231023013864 classical (c) SDRs; Region: SDR_c; cd05233 231023013865 NAD(P) binding site [chemical binding]; other site 231023013866 active site 231023013867 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023013868 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 231023013869 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 231023013870 dimerization interface [polypeptide binding]; other site 231023013871 Ribulose bisphosphate carboxylase like proteins from nonphototrophic bacteria; Region: RLP_NonPhot; cd08207 231023013872 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 231023013873 dimer interface [polypeptide binding]; other site 231023013874 active site 231023013875 catalytic residue [active] 231023013876 metal binding site [ion binding]; metal-binding site 231023013877 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 231023013878 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 231023013879 metabolite-proton symporter; Region: 2A0106; TIGR00883 231023013880 putative substrate translocation pore; other site 231023013881 pyruvate kinase; Provisional; Region: PRK05826 231023013882 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 231023013883 domain interfaces; other site 231023013884 active site 231023013885 enolase; Provisional; Region: eno; PRK00077 231023013886 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 231023013887 dimer interface [polypeptide binding]; other site 231023013888 metal binding site [ion binding]; metal-binding site 231023013889 substrate binding pocket [chemical binding]; other site 231023013890 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 231023013891 phosphoglyceromutase; Provisional; Region: PRK05434 231023013892 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 231023013893 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 231023013894 CoenzymeA binding site [chemical binding]; other site 231023013895 subunit interaction site [polypeptide binding]; other site 231023013896 PHB binding site; other site 231023013897 MarR family; Region: MarR_2; pfam12802 231023013898 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 231023013899 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023013900 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023013901 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 231023013902 putative effector binding pocket; other site 231023013903 dimerization interface [polypeptide binding]; other site 231023013904 short chain dehydrogenase; Provisional; Region: PRK06500 231023013905 classical (c) SDRs; Region: SDR_c; cd05233 231023013906 NAD(P) binding site [chemical binding]; other site 231023013907 active site 231023013908 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 231023013909 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 231023013910 C-terminal domain interface [polypeptide binding]; other site 231023013911 GSH binding site (G-site) [chemical binding]; other site 231023013912 dimer interface [polypeptide binding]; other site 231023013913 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 231023013914 N-terminal domain interface [polypeptide binding]; other site 231023013915 dimer interface [polypeptide binding]; other site 231023013916 substrate binding pocket (H-site) [chemical binding]; other site 231023013917 Flagellin N-methylase; Region: FliB; pfam03692 231023013918 tyramine oxidase; Provisional; Region: tynA; PRK14696 231023013919 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 231023013920 Copper amine oxidase, N2 domain; Region: Cu_amine_oxidN2; pfam02727 231023013921 Copper amine oxidase, N3 domain; Region: Cu_amine_oxidN3; pfam02728 231023013922 Copper amine oxidase, enzyme domain; Region: Cu_amine_oxid; pfam01179 231023013923 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 231023013924 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 231023013925 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 231023013926 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 231023013927 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 231023013928 active site 231023013929 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 231023013930 Helix-turn-helix domain; Region: HTH_18; pfam12833 231023013931 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 231023013932 CoenzymeA binding site [chemical binding]; other site 231023013933 subunit interaction site [polypeptide binding]; other site 231023013934 PHB binding site; other site 231023013935 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 231023013936 active site 231023013937 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 231023013938 catalytic tetrad [active] 231023013939 Transcriptional regulators [Transcription]; Region: MarR; COG1846 231023013940 MarR family; Region: MarR_2; pfam12802 231023013941 Protein of unknown function (DUF1264); Region: DUF1264; pfam06884 231023013942 Protein of unknown function (DUF1264); Region: DUF1264; pfam06884 231023013943 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 231023013944 non-specific DNA binding site [nucleotide binding]; other site 231023013945 salt bridge; other site 231023013946 sequence-specific DNA binding site [nucleotide binding]; other site 231023013947 Y-family of DNA polymerases; Region: PolY; cl12025 231023013948 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 231023013949 SIR2-like domain; Region: SIR2_2; pfam13289 231023013950 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 231023013951 Transposase; Region: HTH_Tnp_1; pfam01527 231023013952 HTH-like domain; Region: HTH_21; pfam13276 231023013953 Integrase core domain; Region: rve; pfam00665 231023013954 DDE domain; Region: DDE_Tnp_IS240; pfam13610 231023013955 Integrase core domain; Region: rve_3; pfam13683 231023013956 Protein of unknown function (DUF1264); Region: DUF1264; pfam06884 231023013957 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 231023013958 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 231023013959 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 231023013960 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 231023013961 putative ion selectivity filter; other site 231023013962 putative pore gating glutamate residue; other site 231023013963 putative H+/Cl- coupling transport residue; other site 231023013964 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 231023013965 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 231023013966 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 231023013967 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 231023013968 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 231023013969 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 231023013970 dimer interface [polypeptide binding]; other site 231023013971 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 231023013972 putative CheW interface [polypeptide binding]; other site 231023013973 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 231023013974 NADH(P)-binding; Region: NAD_binding_10; pfam13460 231023013975 extended (e) SDRs; Region: SDR_e; cd08946 231023013976 NAD(P) binding site [chemical binding]; other site 231023013977 active site 231023013978 substrate binding site [chemical binding]; other site 231023013979 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 231023013980 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 231023013981 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 4. 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...; Region: MR_like_4; cd03329 231023013982 putative active site pocket [active] 231023013983 metal binding site [ion binding]; metal-binding site 231023013984 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 231023013985 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_7; cd08512 231023013986 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 231023013987 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023013988 dimer interface [polypeptide binding]; other site 231023013989 conserved gate region; other site 231023013990 putative PBP binding loops; other site 231023013991 ABC-ATPase subunit interface; other site 231023013992 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_7; cd08512 231023013993 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 231023013994 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 231023013995 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023013996 dimer interface [polypeptide binding]; other site 231023013997 conserved gate region; other site 231023013998 ABC-ATPase subunit interface; other site 231023013999 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 231023014000 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 231023014001 Walker A/P-loop; other site 231023014002 ATP binding site [chemical binding]; other site 231023014003 Q-loop/lid; other site 231023014004 ABC transporter signature motif; other site 231023014005 Walker B; other site 231023014006 D-loop; other site 231023014007 H-loop/switch region; other site 231023014008 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 231023014009 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 231023014010 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 231023014011 Walker A/P-loop; other site 231023014012 ATP binding site [chemical binding]; other site 231023014013 Q-loop/lid; other site 231023014014 ABC transporter signature motif; other site 231023014015 Walker B; other site 231023014016 D-loop; other site 231023014017 H-loop/switch region; other site 231023014018 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 231023014019 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 231023014020 Interdomain contacts; other site 231023014021 Cytokine receptor motif; other site 231023014022 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 231023014023 Transcriptional regulators [Transcription]; Region: FadR; COG2186 231023014024 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023014025 DNA-binding site [nucleotide binding]; DNA binding site 231023014026 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 231023014027 Transcriptional regulators [Transcription]; Region: FadR; COG2186 231023014028 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023014029 DNA-binding site [nucleotide binding]; DNA binding site 231023014030 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 231023014031 XdhC Rossmann domain; Region: XdhC_C; pfam13478 231023014032 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 231023014033 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 231023014034 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 231023014035 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 231023014036 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 231023014037 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 231023014038 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 231023014039 Cytochrome c; Region: Cytochrom_C; pfam00034 231023014040 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 231023014041 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 231023014042 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 231023014043 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 231023014044 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 231023014045 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 231023014046 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 231023014047 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 231023014048 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 231023014049 hypothetical protein; Provisional; Region: PRK06847 231023014050 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 231023014051 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 231023014052 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 231023014053 Isochorismatase family; Region: Isochorismatase; pfam00857 231023014054 N-carbamoylsarcosine amidohydrolase (CSHase) hydrolyzes N-carbamoylsarcosine to sarcosine, carbon dioxide and ammonia. CSHase is involved in one of the two alternative pathways for creatinine degradation to glycine in microorganisms.This...; Region: CSHase; cd01015 231023014055 catalytic triad [active] 231023014056 substrate binding site [chemical binding]; other site 231023014057 domain interfaces; other site 231023014058 conserved cis-peptide bond; other site 231023014059 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 231023014060 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 231023014061 putative substrate translocation pore; other site 231023014062 outer membrane porin, OprD family; Region: OprD; pfam03573 231023014063 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023014064 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023014065 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 231023014066 putative effector binding pocket; other site 231023014067 dimerization interface [polypeptide binding]; other site 231023014068 hypothetical protein; Provisional; Region: PRK10621 231023014069 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 231023014070 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 231023014071 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023014072 metal binding site [ion binding]; metal-binding site 231023014073 active site 231023014074 I-site; other site 231023014075 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 231023014076 transmembrane helices; other site 231023014077 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 231023014078 TrkA-C domain; Region: TrkA_C; pfam02080 231023014079 TrkA-C domain; Region: TrkA_C; pfam02080 231023014080 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 231023014081 transmembrane helices; other site 231023014082 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 231023014083 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 231023014084 S-adenosylmethionine binding site [chemical binding]; other site 231023014085 short chain dehydrogenase; Provisional; Region: PRK07035 231023014086 classical (c) SDRs; Region: SDR_c; cd05233 231023014087 NAD(P) binding site [chemical binding]; other site 231023014088 active site 231023014089 Phosphotransferase enzyme family; Region: APH; pfam01636 231023014090 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 231023014091 putative active site [active] 231023014092 putative substrate binding site [chemical binding]; other site 231023014093 ATP binding site [chemical binding]; other site 231023014094 SCP-2 sterol transfer family; Region: SCP2; pfam02036 231023014095 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 231023014096 catalytic core [active] 231023014097 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 231023014098 putative inner membrane peptidase; Provisional; Region: PRK11778 231023014099 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 231023014100 tandem repeat interface [polypeptide binding]; other site 231023014101 oligomer interface [polypeptide binding]; other site 231023014102 active site residues [active] 231023014103 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 231023014104 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 231023014105 active site 231023014106 DNA binding site [nucleotide binding] 231023014107 Int/Topo IB signature motif; other site 231023014108 Domain of unknown function (DUF4224); Region: DUF4224; pfam13986 231023014109 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 231023014110 LabA_like proteins; Region: LabA_like/DUF88; cl10034 231023014111 putative metal binding site [ion binding]; other site 231023014112 Uncharacterized conserved protein [Function unknown]; Region: COG1432 231023014113 Uncharacterized conserved protein (DUF2303); Region: DUF2303; cl02338 231023014114 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 231023014115 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 231023014116 DNA binding residues [nucleotide binding] 231023014117 dimerization interface [polypeptide binding]; other site 231023014118 Protein of unknown function (DUF1654); Region: DUF1654; pfam07867 231023014119 Transposase; Region: HTH_Tnp_1; pfam01527 231023014120 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 231023014121 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 231023014122 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 231023014123 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 231023014124 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 231023014125 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 231023014126 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 231023014127 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 231023014128 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 231023014129 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 231023014130 non-specific DNA binding site [nucleotide binding]; other site 231023014131 salt bridge; other site 231023014132 sequence-specific DNA binding site [nucleotide binding]; other site 231023014133 Predicted transcriptional regulator [Transcription]; Region: COG2932 231023014134 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 231023014135 Catalytic site [active] 231023014136 Bacteriophage replication protein O; Region: Phage_rep_O; cl04545 231023014137 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 231023014138 phage replicative helicase, DnaB family, HK022 subfamily; Region: phage_DnaB; TIGR03600 231023014139 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 231023014140 Walker A motif; other site 231023014141 ATP binding site [chemical binding]; other site 231023014142 Walker B motif; other site 231023014143 DNA binding loops [nucleotide binding] 231023014144 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 231023014145 VRR-NUC domain; Region: VRR_NUC; pfam08774 231023014146 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 231023014147 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 231023014148 active site 231023014149 Int/Topo IB signature motif; other site 231023014150 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 231023014151 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 231023014152 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 231023014153 active site 231023014154 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 231023014155 Phage portal protein; Region: Phage_portal; pfam04860 231023014156 Phage-related protein [Function unknown]; Region: COG4695 231023014157 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 231023014158 oligomer interface [polypeptide binding]; other site 231023014159 active site residues [active] 231023014160 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 231023014161 Phage capsid family; Region: Phage_capsid; pfam05065 231023014162 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 231023014163 oligomerization interface [polypeptide binding]; other site 231023014164 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 231023014165 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 231023014166 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 231023014167 Phage tail protein; Region: Phage_tail_3; pfam08813 231023014168 tape measure domain; Region: tape_meas_nterm; TIGR02675 231023014169 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 231023014170 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 231023014171 Phage minor tail protein; Region: Phage_min_tail; pfam05939 231023014172 Phage-related protein [Function unknown]; Region: gp18; COG4672 231023014173 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 231023014174 MPN+ (JAMM) motif; other site 231023014175 Zinc-binding site [ion binding]; other site 231023014176 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 231023014177 NlpC/P60 family; Region: NLPC_P60; cl17555 231023014178 Phage-related protein, tail component [Function unknown]; Region: COG4723 231023014179 Phage-related protein, tail component [Function unknown]; Region: COG4733 231023014180 Putative phage tail protein; Region: Phage-tail_3; pfam13550 231023014181 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 231023014182 Protein of unknown function (DUF1375); Region: DUF1375; pfam07119 231023014183 The lysozyme from bacteriophage lambda hydrolyses the beta-1,4-glycosidic bond between N-acetylmuramic acid (MurNAc) and N-acetylglucosamine (GlcNAc), as do other lysozymes. But unlike other lysozymes, bacteriophage lambda does not produce a reducing...; Region: bacteriophage_lambda_lysozyme; cd00736 231023014184 N-acetyl-D-glucosamine binding site [chemical binding]; other site 231023014185 catalytic residue [active] 231023014186 Protein of unknown function (DUF2514); Region: DUF2514; pfam10721 231023014187 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 231023014188 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 231023014189 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 231023014190 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 231023014191 active site 231023014192 DNA binding site [nucleotide binding] 231023014193 Int/Topo IB signature motif; other site 231023014194 Mannitol repressor; Region: MtlR; cl11450 231023014195 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 231023014196 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 231023014197 DNA binding site [nucleotide binding] 231023014198 substrate interaction site [chemical binding]; other site 231023014199 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 231023014200 hypothetical protein; Provisional; Region: PRK04140 231023014201 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 231023014202 ERF superfamily; Region: ERF; pfam04404 231023014203 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 231023014204 Transposase; Region: HTH_Tnp_1; pfam01527 231023014205 HTH-like domain; Region: HTH_21; pfam13276 231023014206 Integrase core domain; Region: rve; pfam00665 231023014207 DDE domain; Region: DDE_Tnp_IS240; pfam13610 231023014208 Integrase core domain; Region: rve_3; pfam13683 231023014209 Isochorismatase family; Region: Isochorismatase; pfam00857 231023014210 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 231023014211 catalytic triad [active] 231023014212 conserved cis-peptide bond; other site 231023014213 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 231023014214 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 231023014215 putative NAD(P) binding site [chemical binding]; other site 231023014216 active site 231023014217 putative substrate binding site [chemical binding]; other site 231023014218 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 231023014219 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 231023014220 DNA binding residues [nucleotide binding] 231023014221 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 231023014222 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 231023014223 NAD binding site [chemical binding]; other site 231023014224 substrate binding site [chemical binding]; other site 231023014225 catalytic Zn binding site [ion binding]; other site 231023014226 tetramer interface [polypeptide binding]; other site 231023014227 structural Zn binding site [ion binding]; other site 231023014228 Predicted membrane protein [Function unknown]; Region: COG2259 231023014229 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023014230 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 231023014231 putative active site [active] 231023014232 heme pocket [chemical binding]; other site 231023014233 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023014234 dimer interface [polypeptide binding]; other site 231023014235 phosphorylation site [posttranslational modification] 231023014236 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023014237 ATP binding site [chemical binding]; other site 231023014238 Mg2+ binding site [ion binding]; other site 231023014239 G-X-G motif; other site 231023014240 circadian clock protein KaiC; Reviewed; Region: PRK09302 231023014241 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 231023014242 Walker A motif; other site 231023014243 ATP binding site [chemical binding]; other site 231023014244 Walker B motif; other site 231023014245 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 231023014246 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 231023014247 Walker A motif; other site 231023014248 Walker A motif; other site 231023014249 ATP binding site [chemical binding]; other site 231023014250 Walker B motif; other site 231023014251 Response regulator receiver domain; Region: Response_reg; pfam00072 231023014252 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023014253 active site 231023014254 phosphorylation site [posttranslational modification] 231023014255 intermolecular recognition site; other site 231023014256 dimerization interface [polypeptide binding]; other site 231023014257 carbon storage regulator; Provisional; Region: PRK01712 231023014258 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 231023014259 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 231023014260 active site 231023014261 DNA binding site [nucleotide binding] 231023014262 Int/Topo IB signature motif; other site 231023014263 catalytic residues [active] 231023014264 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023014265 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 231023014266 Walker A/P-loop; other site 231023014267 ATP binding site [chemical binding]; other site 231023014268 Q-loop/lid; other site 231023014269 ABC transporter signature motif; other site 231023014270 Walker B; other site 231023014271 D-loop; other site 231023014272 H-loop/switch region; other site 231023014273 TOBE domain; Region: TOBE; cl01440 231023014274 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 231023014275 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023014276 dimer interface [polypeptide binding]; other site 231023014277 conserved gate region; other site 231023014278 putative PBP binding loops; other site 231023014279 ABC-ATPase subunit interface; other site 231023014280 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 231023014281 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 231023014282 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 231023014283 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 231023014284 FMN binding site [chemical binding]; other site 231023014285 substrate binding site [chemical binding]; other site 231023014286 putative catalytic residue [active] 231023014287 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 231023014288 Cytochrome c553 [Energy production and conversion]; Region: COG2863 231023014289 Cytochrome c; Region: Cytochrom_C; cl11414 231023014290 Cytochrome c [Energy production and conversion]; Region: COG3258 231023014291 Cytochrome c; Region: Cytochrom_C; pfam00034 231023014292 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 231023014293 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 231023014294 active site 231023014295 tetramer interface; other site 231023014296 glutathione reductase; Validated; Region: PRK06116 231023014297 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 231023014298 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 231023014299 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 231023014300 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 231023014301 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 231023014302 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 231023014303 ligand binding site [chemical binding]; other site 231023014304 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 231023014305 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023014306 Walker A/P-loop; other site 231023014307 ATP binding site [chemical binding]; other site 231023014308 Q-loop/lid; other site 231023014309 ABC transporter signature motif; other site 231023014310 Walker B; other site 231023014311 D-loop; other site 231023014312 H-loop/switch region; other site 231023014313 TOBE domain; Region: TOBE_2; pfam08402 231023014314 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 231023014315 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023014316 dimer interface [polypeptide binding]; other site 231023014317 conserved gate region; other site 231023014318 putative PBP binding loops; other site 231023014319 ABC-ATPase subunit interface; other site 231023014320 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023014321 dimer interface [polypeptide binding]; other site 231023014322 conserved gate region; other site 231023014323 putative PBP binding loops; other site 231023014324 ABC-ATPase subunit interface; other site 231023014325 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 231023014326 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 231023014327 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK12485 231023014328 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 231023014329 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 231023014330 dimerization interface [polypeptide binding]; other site 231023014331 active site 231023014332 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 231023014333 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 231023014334 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 231023014335 LysR family transcriptional regulator; Provisional; Region: PRK14997 231023014336 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023014337 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 231023014338 putative effector binding pocket; other site 231023014339 dimerization interface [polypeptide binding]; other site 231023014340 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 231023014341 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 231023014342 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 231023014343 catalytic triad [active] 231023014344 dimer interface [polypeptide binding]; other site 231023014345 Isochorismatase family; Region: Isochorismatase; pfam00857 231023014346 conserved cis-peptide bond; other site 231023014347 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 231023014348 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 231023014349 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 231023014350 intersubunit interface [polypeptide binding]; other site 231023014351 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 231023014352 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 231023014353 ABC-ATPase subunit interface; other site 231023014354 dimer interface [polypeptide binding]; other site 231023014355 putative PBP binding regions; other site 231023014356 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 231023014357 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 231023014358 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 231023014359 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 231023014360 metal binding site [ion binding]; metal-binding site 231023014361 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 231023014362 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 231023014363 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 231023014364 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 231023014365 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 231023014366 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 231023014367 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 231023014368 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 231023014369 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 231023014370 active site 231023014371 DNA binding site [nucleotide binding] 231023014372 Int/Topo IB signature motif; other site 231023014373 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023014374 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023014375 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 231023014376 dimerization interface [polypeptide binding]; other site 231023014377 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 231023014378 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 231023014379 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 231023014380 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 231023014381 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 231023014382 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 231023014383 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 231023014384 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 231023014385 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 231023014386 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 231023014387 Alginate lyase; Region: Alginate_lyase2; pfam08787 231023014388 Protein of unknown function (DUF1654); Region: DUF1654; pfam07867 231023014389 Predicted transcriptional regulator [Transcription]; Region: COG2932 231023014390 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 231023014391 Catalytic site [active] 231023014392 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 231023014393 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 231023014394 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 231023014395 shikimate binding site; other site 231023014396 NAD(P) binding site [chemical binding]; other site 231023014397 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 231023014398 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 231023014399 dimer interface [polypeptide binding]; other site 231023014400 active site 231023014401 metal binding site [ion binding]; metal-binding site 231023014402 glutathione binding site [chemical binding]; other site 231023014403 outer membrane porin, OprD family; Region: OprD; pfam03573 231023014404 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 231023014405 active site 231023014406 SAM binding site [chemical binding]; other site 231023014407 homodimer interface [polypeptide binding]; other site 231023014408 Response regulator receiver domain; Region: Response_reg; pfam00072 231023014409 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023014410 active site 231023014411 phosphorylation site [posttranslational modification] 231023014412 intermolecular recognition site; other site 231023014413 dimerization interface [polypeptide binding]; other site 231023014414 CHASE3 domain; Region: CHASE3; pfam05227 231023014415 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 231023014416 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023014417 dimer interface [polypeptide binding]; other site 231023014418 phosphorylation site [posttranslational modification] 231023014419 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023014420 ATP binding site [chemical binding]; other site 231023014421 Mg2+ binding site [ion binding]; other site 231023014422 G-X-G motif; other site 231023014423 Response regulator receiver domain; Region: Response_reg; pfam00072 231023014424 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023014425 active site 231023014426 phosphorylation site [posttranslational modification] 231023014427 intermolecular recognition site; other site 231023014428 dimerization interface [polypeptide binding]; other site 231023014429 Response regulator receiver domain; Region: Response_reg; pfam00072 231023014430 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023014431 active site 231023014432 phosphorylation site [posttranslational modification] 231023014433 intermolecular recognition site; other site 231023014434 Response regulator receiver domain; Region: Response_reg; pfam00072 231023014435 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023014436 active site 231023014437 phosphorylation site [posttranslational modification] 231023014438 intermolecular recognition site; other site 231023014439 dimerization interface [polypeptide binding]; other site 231023014440 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 231023014441 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 231023014442 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 231023014443 CheB methylesterase; Region: CheB_methylest; pfam01339 231023014444 Response regulator receiver domain; Region: Response_reg; pfam00072 231023014445 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023014446 active site 231023014447 phosphorylation site [posttranslational modification] 231023014448 intermolecular recognition site; other site 231023014449 dimerization interface [polypeptide binding]; other site 231023014450 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 231023014451 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023014452 dimer interface [polypeptide binding]; other site 231023014453 phosphorylation site [posttranslational modification] 231023014454 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023014455 ATP binding site [chemical binding]; other site 231023014456 Mg2+ binding site [ion binding]; other site 231023014457 G-X-G motif; other site 231023014458 Response regulator receiver domain; Region: Response_reg; pfam00072 231023014459 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023014460 active site 231023014461 phosphorylation site [posttranslational modification] 231023014462 intermolecular recognition site; other site 231023014463 dimerization interface [polypeptide binding]; other site 231023014464 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 231023014465 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 231023014466 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 231023014467 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 231023014468 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 231023014469 beta-ketothiolase; Provisional; Region: PRK09051 231023014470 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 231023014471 dimer interface [polypeptide binding]; other site 231023014472 active site 231023014473 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 231023014474 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 231023014475 SurA N-terminal domain; Region: SurA_N; pfam09312 231023014476 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023014477 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 231023014478 Uncharacterized conserved protein [Function unknown]; Region: COG2128 231023014479 putative cyanate transporter; Provisional; Region: cynX; PRK09705 231023014480 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; cl17904 231023014481 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 231023014482 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023014483 DNA-binding site [nucleotide binding]; DNA binding site 231023014484 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 231023014485 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023014486 homodimer interface [polypeptide binding]; other site 231023014487 catalytic residue [active] 231023014488 Domain of unknown function (DUF336); Region: DUF336; cl01249 231023014489 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 231023014490 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 231023014491 Cysteine-rich domain; Region: CCG; pfam02754 231023014492 Cysteine-rich domain; Region: CCG; pfam02754 231023014493 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 231023014494 FAD binding domain; Region: FAD_binding_4; pfam01565 231023014495 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 231023014496 FAD binding domain; Region: FAD_binding_4; pfam01565 231023014497 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 231023014498 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023014499 DNA-binding site [nucleotide binding]; DNA binding site 231023014500 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 231023014501 conserverd hypothetical protein; Region: TIGR02448 231023014502 GST_N family, unknown subfamily 4; 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_4; cd03056 231023014503 maleylacetoacetate isomerase; Region: maiA; TIGR01262 231023014504 putative C-terminal domain interface [polypeptide binding]; other site 231023014505 putative GSH binding site (G-site) [chemical binding]; other site 231023014506 putative dimer interface [polypeptide binding]; other site 231023014507 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 231023014508 N-terminal domain interface [polypeptide binding]; other site 231023014509 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 231023014510 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 231023014511 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 231023014512 benzoate transport; Region: 2A0115; TIGR00895 231023014513 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 231023014514 outer membrane porin, OprD family; Region: OprD; pfam03573 231023014515 Transcriptional regulators [Transcription]; Region: FadR; COG2186 231023014516 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023014517 DNA-binding site [nucleotide binding]; DNA binding site 231023014518 FCD domain; Region: FCD; pfam07729 231023014519 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 231023014520 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 231023014521 FMN-binding pocket [chemical binding]; other site 231023014522 flavin binding motif; other site 231023014523 phosphate binding motif [ion binding]; other site 231023014524 beta-alpha-beta structure motif; other site 231023014525 NAD binding pocket [chemical binding]; other site 231023014526 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 231023014527 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 231023014528 catalytic loop [active] 231023014529 iron binding site [ion binding]; other site 231023014530 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 231023014531 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 231023014532 iron-sulfur cluster [ion binding]; other site 231023014533 [2Fe-2S] cluster binding site [ion binding]; other site 231023014534 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 231023014535 alpha subunit interface [polypeptide binding]; other site 231023014536 active site 231023014537 substrate binding site [chemical binding]; other site 231023014538 Fe binding site [ion binding]; other site 231023014539 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 231023014540 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 231023014541 Walker A/P-loop; other site 231023014542 ATP binding site [chemical binding]; other site 231023014543 Q-loop/lid; other site 231023014544 ABC transporter signature motif; other site 231023014545 Walker B; other site 231023014546 D-loop; other site 231023014547 H-loop/switch region; other site 231023014548 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 231023014549 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 231023014550 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 231023014551 enoyl-CoA hydratase; Provisional; Region: PRK06688 231023014552 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 231023014553 substrate binding site [chemical binding]; other site 231023014554 oxyanion hole (OAH) forming residues; other site 231023014555 trimer interface [polypeptide binding]; other site 231023014556 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 231023014557 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 231023014558 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 231023014559 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 231023014560 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023014561 active site 231023014562 phosphorylation site [posttranslational modification] 231023014563 intermolecular recognition site; other site 231023014564 dimerization interface [polypeptide binding]; other site 231023014565 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 231023014566 DNA binding site [nucleotide binding] 231023014567 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023014568 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 231023014569 substrate binding pocket [chemical binding]; other site 231023014570 membrane-bound complex binding site; other site 231023014571 hinge residues; other site 231023014572 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 231023014573 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023014574 dimer interface [polypeptide binding]; other site 231023014575 phosphorylation site [posttranslational modification] 231023014576 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023014577 ATP binding site [chemical binding]; other site 231023014578 Mg2+ binding site [ion binding]; other site 231023014579 G-X-G motif; other site 231023014580 Response regulator receiver domain; Region: Response_reg; pfam00072 231023014581 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023014582 active site 231023014583 phosphorylation site [posttranslational modification] 231023014584 intermolecular recognition site; other site 231023014585 dimerization interface [polypeptide binding]; other site 231023014586 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 231023014587 putative binding surface; other site 231023014588 active site 231023014589 S-methylmethionine transporter; Provisional; Region: PRK11387 231023014590 enoyl-CoA hydratase; Provisional; Region: PRK06688 231023014591 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 231023014592 substrate binding site [chemical binding]; other site 231023014593 oxyanion hole (OAH) forming residues; other site 231023014594 trimer interface [polypeptide binding]; other site 231023014595 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 231023014596 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 231023014597 active site 231023014598 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 231023014599 CoA binding domain; Region: CoA_binding_2; pfam13380 231023014600 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 231023014601 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 231023014602 hypothetical protein; Provisional; Region: PRK07524 231023014603 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 231023014604 PYR/PP interface [polypeptide binding]; other site 231023014605 dimer interface [polypeptide binding]; other site 231023014606 TPP binding site [chemical binding]; other site 231023014607 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 231023014608 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 231023014609 TPP-binding site [chemical binding]; other site 231023014610 alanine racemase; Reviewed; Region: PRK13340 231023014611 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme, Alanine Racemase 2; Region: PLPDE_III_AR2; cd06826 231023014612 active site 231023014613 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 231023014614 dimer interface [polypeptide binding]; other site 231023014615 substrate binding site [chemical binding]; other site 231023014616 catalytic residues [active] 231023014617 aspartate aminotransferase; Provisional; Region: PRK05764 231023014618 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 231023014619 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023014620 homodimer interface [polypeptide binding]; other site 231023014621 catalytic residue [active] 231023014622 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 231023014623 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 231023014624 NAD binding site [chemical binding]; other site 231023014625 catalytic residues [active] 231023014626 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 231023014627 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 231023014628 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 231023014629 hypothetical protein; Provisional; Region: PRK07036 231023014630 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 231023014631 inhibitor-cofactor binding pocket; inhibition site 231023014632 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023014633 catalytic residue [active] 231023014634 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 231023014635 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 231023014636 DNA binding residues [nucleotide binding] 231023014637 dimerization interface [polypeptide binding]; other site 231023014638 ethanolamine utilization protein EutH; Provisional; Region: PRK15086 231023014639 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 231023014640 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 231023014641 DNA binding residues [nucleotide binding] 231023014642 dimerization interface [polypeptide binding]; other site 231023014643 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 231023014644 FAD binding domain; Region: FAD_binding_4; pfam01565 231023014645 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 231023014646 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 231023014647 classical (c) SDRs; Region: SDR_c; cd05233 231023014648 NAD(P) binding site [chemical binding]; other site 231023014649 active site 231023014650 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 231023014651 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023014652 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 231023014653 dimerization interface [polypeptide binding]; other site 231023014654 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 231023014655 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 231023014656 octamer interface [polypeptide binding]; other site 231023014657 active site 231023014658 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 231023014659 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 231023014660 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 231023014661 dimer interface [polypeptide binding]; other site 231023014662 active site 231023014663 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 231023014664 Coenzyme A binding pocket [chemical binding]; other site 231023014665 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023014666 PAS domain; Region: PAS_9; pfam13426 231023014667 putative active site [active] 231023014668 heme pocket [chemical binding]; other site 231023014669 PAS fold; Region: PAS_4; pfam08448 231023014670 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023014671 putative active site [active] 231023014672 heme pocket [chemical binding]; other site 231023014673 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023014674 metal binding site [ion binding]; metal-binding site 231023014675 active site 231023014676 I-site; other site 231023014677 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 231023014678 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 231023014679 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 231023014680 active site 231023014681 catalytic tetrad [active] 231023014682 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 231023014683 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023014684 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023014685 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 231023014686 putative substrate binding pocket [chemical binding]; other site 231023014687 putative dimerization interface [polypeptide binding]; other site 231023014688 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 231023014689 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 231023014690 dimer interface [polypeptide binding]; other site 231023014691 active site 231023014692 heme binding site [chemical binding]; other site 231023014693 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 231023014694 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 231023014695 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 231023014696 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 231023014697 active site 231023014698 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 231023014699 metabolite-proton symporter; Region: 2A0106; TIGR00883 231023014700 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 231023014701 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 231023014702 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 231023014703 conserved cys residue [active] 231023014704 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023014705 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 231023014706 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 231023014707 domain interface [polypeptide binding]; other site 231023014708 putative active site [active] 231023014709 catalytic site [active] 231023014710 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 231023014711 domain interface [polypeptide binding]; other site 231023014712 putative active site [active] 231023014713 catalytic site [active] 231023014714 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 231023014715 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023014716 metal binding site [ion binding]; metal-binding site 231023014717 active site 231023014718 I-site; other site 231023014719 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 231023014720 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 231023014721 Predicted membrane protein [Function unknown]; Region: COG2855 231023014722 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023014723 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 231023014724 putative dimerization interface [polypeptide binding]; other site 231023014725 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 231023014726 putative active site [active] 231023014727 putative catalytic site [active] 231023014728 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 231023014729 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 231023014730 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023014731 benzoate transport; Region: 2A0115; TIGR00895 231023014732 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 231023014733 putative substrate translocation pore; other site 231023014734 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 231023014735 putative FMN binding site [chemical binding]; other site 231023014736 outer membrane porin, OprD family; Region: OprD; pfam03573 231023014737 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 231023014738 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 231023014739 Na binding site [ion binding]; other site 231023014740 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 231023014741 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 231023014742 putative DNA binding site [nucleotide binding]; other site 231023014743 putative Zn2+ binding site [ion binding]; other site 231023014744 AsnC family; Region: AsnC_trans_reg; pfam01037 231023014745 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 231023014746 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 231023014747 PAS fold; Region: PAS_4; pfam08448 231023014748 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 231023014749 GAF domain; Region: GAF; pfam01590 231023014750 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023014751 dimer interface [polypeptide binding]; other site 231023014752 phosphorylation site [posttranslational modification] 231023014753 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023014754 ATP binding site [chemical binding]; other site 231023014755 Mg2+ binding site [ion binding]; other site 231023014756 G-X-G motif; other site 231023014757 Response regulator receiver domain; Region: Response_reg; pfam00072 231023014758 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023014759 active site 231023014760 phosphorylation site [posttranslational modification] 231023014761 intermolecular recognition site; other site 231023014762 dimerization interface [polypeptide binding]; other site 231023014763 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_4; cd04511 231023014764 nudix motif; other site 231023014765 Transcriptional regulators [Transcription]; Region: GntR; COG1802 231023014766 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023014767 DNA-binding site [nucleotide binding]; DNA binding site 231023014768 FCD domain; Region: FCD; pfam07729 231023014769 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 231023014770 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 231023014771 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 231023014772 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 231023014773 NAD(P) binding site [chemical binding]; other site 231023014774 catalytic residues [active] 231023014775 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 231023014776 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 231023014777 Amino acid synthesis; Region: AA_synth; pfam06684 231023014778 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 231023014779 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 231023014780 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 231023014781 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 231023014782 Na binding site [ion binding]; other site 231023014783 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 231023014784 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023014785 dimerization interface [polypeptide binding]; other site 231023014786 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 231023014787 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 231023014788 dimer interface [polypeptide binding]; other site 231023014789 putative CheW interface [polypeptide binding]; other site 231023014790 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 231023014791 Predicted transcriptional regulator [Transcription]; Region: COG1959 231023014792 Transcriptional regulator; Region: Rrf2; pfam02082 231023014793 Cupin; Region: Cupin_6; pfam12852 231023014794 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 231023014795 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023014796 Uncharacterized conserved protein [Function unknown]; Region: COG2128 231023014797 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 231023014798 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 231023014799 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 231023014800 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 231023014801 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 231023014802 Walker A/P-loop; other site 231023014803 ATP binding site [chemical binding]; other site 231023014804 Q-loop/lid; other site 231023014805 ABC transporter signature motif; other site 231023014806 Walker B; other site 231023014807 D-loop; other site 231023014808 H-loop/switch region; other site 231023014809 NMT1-like family; Region: NMT1_2; pfam13379 231023014810 NMT1/THI5 like; Region: NMT1; pfam09084 231023014811 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 231023014812 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023014813 dimer interface [polypeptide binding]; other site 231023014814 conserved gate region; other site 231023014815 putative PBP binding loops; other site 231023014816 ABC-ATPase subunit interface; other site 231023014817 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 231023014818 Coenzyme A binding pocket [chemical binding]; other site 231023014819 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 231023014820 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 231023014821 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023014822 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023014823 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 231023014824 dimerization interface [polypeptide binding]; other site 231023014825 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 231023014826 Bacterial SH3 domain; Region: SH3_3; pfam08239 231023014827 outer membrane porin, OprD family; Region: OprD; pfam03573 231023014828 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 231023014829 dimer interface [polypeptide binding]; other site 231023014830 BCCT family transporter; Region: BCCT; pfam02028 231023014831 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 231023014832 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 231023014833 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023014834 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 231023014835 substrate binding pocket [chemical binding]; other site 231023014836 membrane-bound complex binding site; other site 231023014837 hinge residues; other site 231023014838 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 231023014839 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 231023014840 Cytochrome c; Region: Cytochrom_C; pfam00034 231023014841 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 231023014842 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 231023014843 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 231023014844 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 231023014845 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 231023014846 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 231023014847 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 231023014848 catalytic loop [active] 231023014849 iron binding site [ion binding]; other site 231023014850 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 231023014851 YcaO domain protein; Region: TIGR03549 231023014852 OsmC-like protein; Region: OsmC; pfam02566 231023014853 YcaO-like family; Region: YcaO; pfam02624 231023014854 Protein of unknown function (DUF3303); Region: DUF3303; pfam11746 231023014855 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 231023014856 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 231023014857 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 231023014858 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 231023014859 N-terminal plug; other site 231023014860 ligand-binding site [chemical binding]; other site 231023014861 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 231023014862 Protein of unknown function, DUF606; Region: DUF606; pfam04657 231023014863 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 231023014864 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023014865 The C-terminal substrate binding domain of LysR-type transcriptional regulator ToxR regulates the expression of the toxoflavin biosynthesis genes; contains the type 2 periplasmic bindinig fold; Region: PBP2_ToxR; cd08465 231023014866 putative substrate binding pocket [chemical binding]; other site 231023014867 putative dimerization interface [polypeptide binding]; other site 231023014868 Protein of unknown function (DUF998); Region: DUF998; pfam06197 231023014869 Transcriptional regulators [Transcription]; Region: FadR; COG2186 231023014870 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023014871 DNA-binding site [nucleotide binding]; DNA binding site 231023014872 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 231023014873 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 231023014874 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 231023014875 dimer interface [polypeptide binding]; other site 231023014876 NADP binding site [chemical binding]; other site 231023014877 catalytic residues [active] 231023014878 galactarate dehydratase; Region: galactar-dH20; TIGR03248 231023014879 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 231023014880 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 231023014881 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 231023014882 D-galactonate transporter; Region: 2A0114; TIGR00893 231023014883 putative substrate translocation pore; other site 231023014884 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 231023014885 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 231023014886 putative active site [active] 231023014887 catalytic residue [active] 231023014888 Peptidase C26; Region: Peptidase_C26; pfam07722 231023014889 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 231023014890 catalytic triad [active] 231023014891 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 231023014892 Homeodomain-like domain; Region: HTH_23; cl17451 231023014893 Helix-turn-helix domain; Region: HTH_28; pfam13518 231023014894 putative transposase OrfB; Reviewed; Region: PHA02517 231023014895 HTH-like domain; Region: HTH_21; pfam13276 231023014896 Integrase core domain; Region: rve; pfam00665 231023014897 Integrase core domain; Region: rve_2; pfam13333 231023014898 ABC-2 type transporter; Region: ABC2_membrane; cl17235 231023014899 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 231023014900 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 231023014901 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023014902 Walker A/P-loop; other site 231023014903 ATP binding site [chemical binding]; other site 231023014904 Q-loop/lid; other site 231023014905 ABC transporter signature motif; other site 231023014906 Walker B; other site 231023014907 D-loop; other site 231023014908 H-loop/switch region; other site 231023014909 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 231023014910 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 231023014911 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 231023014912 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 231023014913 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 231023014914 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 231023014915 ligand binding site [chemical binding]; other site 231023014916 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023014917 dimerization interface [polypeptide binding]; other site 231023014918 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 231023014919 Histidine kinase; Region: HisKA_3; pfam07730 231023014920 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023014921 ATP binding site [chemical binding]; other site 231023014922 Mg2+ binding site [ion binding]; other site 231023014923 G-X-G motif; other site 231023014924 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 231023014925 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023014926 active site 231023014927 phosphorylation site [posttranslational modification] 231023014928 intermolecular recognition site; other site 231023014929 dimerization interface [polypeptide binding]; other site 231023014930 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 231023014931 DNA binding residues [nucleotide binding] 231023014932 dimerization interface [polypeptide binding]; other site 231023014933 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 231023014934 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 231023014935 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 231023014936 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 231023014937 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 231023014938 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 231023014939 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 231023014940 dimer interface [polypeptide binding]; other site 231023014941 Trp docking motif [polypeptide binding]; other site 231023014942 active site 231023014943 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 231023014944 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023014945 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 231023014946 substrate binding pocket [chemical binding]; other site 231023014947 membrane-bound complex binding site; other site 231023014948 hinge residues; other site 231023014949 sulfur oxidation protein SoxY; Provisional; Region: PRK07474 231023014950 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 231023014951 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 231023014952 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 231023014953 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 231023014954 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 231023014955 dimer interface [polypeptide binding]; other site 231023014956 Trp docking motif [polypeptide binding]; other site 231023014957 active site 231023014958 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II and Staphylococcus aureus AldA1 (SACOL0154)-like; Region: ALDH_ACDHII_AcoD-like; cd07559 231023014959 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 231023014960 NAD(P) binding site [chemical binding]; other site 231023014961 catalytic residues [active] 231023014962 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 231023014963 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 231023014964 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 231023014965 putative active site [active] 231023014966 metal binding site [ion binding]; metal-binding site 231023014967 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023014968 PAS domain S-box; Region: sensory_box; TIGR00229 231023014969 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 231023014970 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023014971 dimer interface [polypeptide binding]; other site 231023014972 phosphorylation site [posttranslational modification] 231023014973 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023014974 ATP binding site [chemical binding]; other site 231023014975 Mg2+ binding site [ion binding]; other site 231023014976 G-X-G motif; other site 231023014977 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 231023014978 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023014979 active site 231023014980 phosphorylation site [posttranslational modification] 231023014981 intermolecular recognition site; other site 231023014982 dimerization interface [polypeptide binding]; other site 231023014983 outer membrane porin, OprD family; Region: OprD; pfam03573 231023014984 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 231023014985 active site 231023014986 catalytic residues [active] 231023014987 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 231023014988 homodimer interface [polypeptide binding]; other site 231023014989 catalytic residues [active] 231023014990 NAD binding site [chemical binding]; other site 231023014991 substrate binding pocket [chemical binding]; other site 231023014992 flexible flap; other site 231023014993 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 231023014994 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023014995 DNA-binding site [nucleotide binding]; DNA binding site 231023014996 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 231023014997 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023014998 homodimer interface [polypeptide binding]; other site 231023014999 catalytic residue [active] 231023015000 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 231023015001 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023015002 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 231023015003 dimerization interface [polypeptide binding]; other site 231023015004 substrate binding pocket [chemical binding]; other site 231023015005 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 231023015006 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 231023015007 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 231023015008 catalytic residue [active] 231023015009 GntP family permease; Region: GntP_permease; pfam02447 231023015010 fructuronate transporter; Provisional; Region: PRK10034; cl15264 231023015011 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 231023015012 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 231023015013 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 231023015014 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 231023015015 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 231023015016 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 231023015017 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 231023015018 Uncharacterized conserved protein [Function unknown]; Region: COG2308 231023015019 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 231023015020 homotrimer interaction site [polypeptide binding]; other site 231023015021 putative active site [active] 231023015022 Protein of unknown function (DUF3726); Region: DUF3726; pfam12525 231023015023 BCCT family transporter; Region: BCCT; pfam02028 231023015024 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 231023015025 Membrane dipeptidase (Peptidase family M19); Region: Peptidase_M19; pfam01244 231023015026 active site 231023015027 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 231023015028 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 231023015029 NAD(P) binding site [chemical binding]; other site 231023015030 catalytic residues [active] 231023015031 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023015032 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023015033 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 231023015034 putative dimerization interface [polypeptide binding]; other site 231023015035 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 231023015036 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023015037 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 231023015038 putative dimerization interface [polypeptide binding]; other site 231023015039 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 231023015040 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 231023015041 methionine synthase; Provisional; Region: PRK01207 231023015042 substrate binding site [chemical binding]; other site 231023015043 THF binding site; other site 231023015044 zinc-binding site [ion binding]; other site 231023015045 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 231023015046 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 231023015047 catalytic triad [active] 231023015048 dimer interface [polypeptide binding]; other site 231023015049 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023015050 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023015051 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 231023015052 dimerization interface [polypeptide binding]; other site 231023015053 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 231023015054 trimer interface [polypeptide binding]; other site 231023015055 eyelet of channel; other site 231023015056 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 231023015057 metabolite-proton symporter; Region: 2A0106; TIGR00883 231023015058 putative substrate translocation pore; other site 231023015059 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 231023015060 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 231023015061 metal binding site [ion binding]; metal-binding site 231023015062 putative dimer interface [polypeptide binding]; other site 231023015063 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 231023015064 putative catalytic site [active] 231023015065 putative phosphate binding site [ion binding]; other site 231023015066 active site 231023015067 metal binding site A [ion binding]; metal-binding site 231023015068 DNA binding site [nucleotide binding] 231023015069 putative AP binding site [nucleotide binding]; other site 231023015070 putative metal binding site B [ion binding]; other site 231023015071 Thermostable hemolysin; Region: T_hemolysin; pfam12261 231023015072 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 231023015073 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_3; cd05914 231023015074 acyl-activating enzyme (AAE) consensus motif; other site 231023015075 putative AMP binding site [chemical binding]; other site 231023015076 putative active site [active] 231023015077 putative CoA binding site [chemical binding]; other site 231023015078 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 231023015079 heme binding pocket [chemical binding]; other site 231023015080 heme ligand [chemical binding]; other site 231023015081 short chain dehydrogenase; Provisional; Region: PRK09072 231023015082 classical (c) SDRs; Region: SDR_c; cd05233 231023015083 NAD(P) binding site [chemical binding]; other site 231023015084 active site 231023015085 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 231023015086 TPR motif; other site 231023015087 binding surface 231023015088 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 231023015089 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023015090 active site 231023015091 phosphorylation site [posttranslational modification] 231023015092 intermolecular recognition site; other site 231023015093 dimerization interface [polypeptide binding]; other site 231023015094 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 231023015095 DNA binding site [nucleotide binding] 231023015096 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023015097 dimer interface [polypeptide binding]; other site 231023015098 phosphorylation site [posttranslational modification] 231023015099 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023015100 ATP binding site [chemical binding]; other site 231023015101 Mg2+ binding site [ion binding]; other site 231023015102 G-X-G motif; other site 231023015103 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 231023015104 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 231023015105 Low molecular weight phosphatase family; Region: LMWPc; cd00115 231023015106 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 231023015107 active site 231023015108 arsenical pump membrane protein; Provisional; Region: PRK15445 231023015109 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 231023015110 transmembrane helices; other site 231023015111 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 231023015112 dimerization interface [polypeptide binding]; other site 231023015113 putative DNA binding site [nucleotide binding]; other site 231023015114 putative Zn2+ binding site [ion binding]; other site 231023015115 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 231023015116 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 231023015117 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 231023015118 NAD binding site [chemical binding]; other site 231023015119 metal binding site [ion binding]; metal-binding site 231023015120 active site 231023015121 C-terminal domain of adaptor protein (AP) complexes medium mu subunits and its homologs (MHD); Region: AP_MHD_Cterm; cl10970 231023015122 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 231023015123 intracellular protease, PfpI family; Region: PfpI; TIGR01382 231023015124 proposed catalytic triad [active] 231023015125 conserved cys residue [active] 231023015126 Predicted membrane protein [Function unknown]; Region: COG2323 231023015127 C factor cell-cell signaling protein; Provisional; Region: PRK09009 231023015128 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 231023015129 NADP binding site [chemical binding]; other site 231023015130 homodimer interface [polypeptide binding]; other site 231023015131 active site 231023015132 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 231023015133 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 231023015134 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 231023015135 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 231023015136 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 231023015137 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 231023015138 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 231023015139 S-adenosylmethionine binding site [chemical binding]; other site 231023015140 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 231023015141 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 231023015142 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 231023015143 short chain dehydrogenase; Provisional; Region: PRK06101 231023015144 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 231023015145 NAD(P) binding site [chemical binding]; other site 231023015146 active site 231023015147 SnoaL-like domain; Region: SnoaL_2; pfam12680 231023015148 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023015149 PAS domain; Region: PAS_9; pfam13426 231023015150 putative active site [active] 231023015151 heme pocket [chemical binding]; other site 231023015152 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 231023015153 DNA binding residues [nucleotide binding] 231023015154 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 231023015155 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 231023015156 Mechanosensitive ion channel; Region: MS_channel; pfam00924 231023015157 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 231023015158 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 231023015159 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 231023015160 Coenzyme A binding pocket [chemical binding]; other site 231023015161 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 231023015162 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 231023015163 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 231023015164 active site 231023015165 universal stress protein UspE; Provisional; Region: PRK11175 231023015166 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 231023015167 Ligand Binding Site [chemical binding]; other site 231023015168 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 231023015169 Ligand Binding Site [chemical binding]; other site 231023015170 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 231023015171 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 231023015172 active site 231023015173 non-prolyl cis peptide bond; other site 231023015174 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 231023015175 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 231023015176 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 231023015177 Walker A/P-loop; other site 231023015178 ATP binding site [chemical binding]; other site 231023015179 Q-loop/lid; other site 231023015180 ABC transporter signature motif; other site 231023015181 Walker B; other site 231023015182 D-loop; other site 231023015183 H-loop/switch region; other site 231023015184 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 231023015185 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 231023015186 TM-ABC transporter signature motif; other site 231023015187 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 231023015188 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 231023015189 TM-ABC transporter signature motif; other site 231023015190 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 231023015191 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 231023015192 putative ligand binding site [chemical binding]; other site 231023015193 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 231023015194 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 231023015195 putative ligand binding site [chemical binding]; other site 231023015196 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 231023015197 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 231023015198 Walker A/P-loop; other site 231023015199 ATP binding site [chemical binding]; other site 231023015200 Q-loop/lid; other site 231023015201 ABC transporter signature motif; other site 231023015202 Walker B; other site 231023015203 D-loop; other site 231023015204 H-loop/switch region; other site 231023015205 outer membrane porin, OprD family; Region: OprD; pfam03573 231023015206 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 231023015207 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 231023015208 active site 231023015209 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 231023015210 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 231023015211 putative ligand binding site [chemical binding]; other site 231023015212 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 231023015213 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 231023015214 putative ligand binding site [chemical binding]; other site 231023015215 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 231023015216 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 231023015217 Walker A/P-loop; other site 231023015218 ATP binding site [chemical binding]; other site 231023015219 Q-loop/lid; other site 231023015220 ABC transporter signature motif; other site 231023015221 Walker B; other site 231023015222 D-loop; other site 231023015223 H-loop/switch region; other site 231023015224 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 231023015225 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 231023015226 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 231023015227 TM-ABC transporter signature motif; other site 231023015228 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 231023015229 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 231023015230 TM-ABC transporter signature motif; other site 231023015231 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 231023015232 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 231023015233 Flavin binding site [chemical binding]; other site 231023015234 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 231023015235 FMN reductase, MsuE subfamily; Region: FMN_reduc_MsuE; TIGR03566 231023015236 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 231023015237 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 231023015238 active site 231023015239 dimer interface [polypeptide binding]; other site 231023015240 non-prolyl cis peptide bond; other site 231023015241 insertion regions; other site 231023015242 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 231023015243 acyl-activating enzyme (AAE) consensus motif; other site 231023015244 CoA binding site [chemical binding]; other site 231023015245 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 231023015246 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 231023015247 Walker A/P-loop; other site 231023015248 ATP binding site [chemical binding]; other site 231023015249 Q-loop/lid; other site 231023015250 ABC transporter signature motif; other site 231023015251 Walker B; other site 231023015252 D-loop; other site 231023015253 H-loop/switch region; other site 231023015254 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 231023015255 TM-ABC transporter signature motif; other site 231023015256 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 231023015257 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 231023015258 TM-ABC transporter signature motif; other site 231023015259 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 231023015260 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 231023015261 putative ligand binding site [chemical binding]; other site 231023015262 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 231023015263 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023015264 Walker A motif; other site 231023015265 ATP binding site [chemical binding]; other site 231023015266 Walker B motif; other site 231023015267 arginine finger; other site 231023015268 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 231023015269 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 231023015270 Flavin binding site [chemical binding]; other site 231023015271 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023015272 Walker A/P-loop; other site 231023015273 ATP binding site [chemical binding]; other site 231023015274 Q-loop/lid; other site 231023015275 ABC transporter signature motif; other site 231023015276 Walker B; other site 231023015277 D-loop; other site 231023015278 acyl carrier protein; Provisional; Region: acpP; PRK00982 231023015279 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 231023015280 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 231023015281 dimer interface [polypeptide binding]; other site 231023015282 active site 231023015283 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 231023015284 active site 231023015285 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 231023015286 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 231023015287 dimer interface [polypeptide binding]; other site 231023015288 active site 231023015289 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 231023015290 active site 231023015291 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 231023015292 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 231023015293 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 231023015294 catalytic residue [active] 231023015295 Predicted dehydrogenase [General function prediction only]; Region: COG5322 231023015296 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 231023015297 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 231023015298 NAD(P) binding site [chemical binding]; other site 231023015299 active site 231023015300 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 231023015301 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 231023015302 NAD(P) binding site [chemical binding]; other site 231023015303 active site 231023015304 anti-sigma E factor; Provisional; Region: rseB; PRK09455 231023015305 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 231023015306 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 231023015307 Helix-Turn-Helix DNA binding domain of MerR2-like transcription regulators; Region: HTH_MerR2; cd04769 231023015308 DNA binding residues [nucleotide binding] 231023015309 putative dimer interface [polypeptide binding]; other site 231023015310 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 231023015311 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 231023015312 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023015313 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023015314 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 231023015315 putative substrate binding pocket [chemical binding]; other site 231023015316 putative dimerization interface [polypeptide binding]; other site 231023015317 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 231023015318 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 231023015319 putative NAD(P) binding site [chemical binding]; other site 231023015320 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 231023015321 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 231023015322 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 231023015323 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 231023015324 putative substrate translocation pore; other site 231023015325 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 231023015326 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 231023015327 putative active site pocket [active] 231023015328 metal binding site [ion binding]; metal-binding site 231023015329 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023015330 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023015331 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 231023015332 putative dimerization interface [polypeptide binding]; other site 231023015333 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023015334 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023015335 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 231023015336 putative dimerization interface [polypeptide binding]; other site 231023015337 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 231023015338 galactarate dehydratase; Region: galactar-dH20; TIGR03248 231023015339 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 231023015340 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 231023015341 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 231023015342 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 231023015343 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 231023015344 D-galactonate transporter; Region: 2A0114; TIGR00893 231023015345 putative substrate translocation pore; other site 231023015346 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 231023015347 DEAD-like helicases superfamily; Region: DEXDc2; smart00488 231023015348 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 231023015349 DEAD_2; Region: DEAD_2; pfam06733 231023015350 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 231023015351 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 231023015352 NnrS protein; Region: NnrS; pfam05940 231023015353 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 231023015354 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 231023015355 active site 231023015356 DNA binding site [nucleotide binding] 231023015357 Int/Topo IB signature motif; other site 231023015358 UreD urease accessory protein; Region: UreD; cl00530 231023015359 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 231023015360 alpha-gamma subunit interface [polypeptide binding]; other site 231023015361 beta-gamma subunit interface [polypeptide binding]; other site 231023015362 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 231023015363 gamma-beta subunit interface [polypeptide binding]; other site 231023015364 alpha-beta subunit interface [polypeptide binding]; other site 231023015365 urease subunit alpha; Reviewed; Region: ureC; PRK13207 231023015366 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 231023015367 subunit interactions [polypeptide binding]; other site 231023015368 active site 231023015369 flap region; other site 231023015370 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 231023015371 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 231023015372 dimer interface [polypeptide binding]; other site 231023015373 catalytic residues [active] 231023015374 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 231023015375 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 231023015376 UreF; Region: UreF; pfam01730 231023015377 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 231023015378 G1 box; other site 231023015379 GTP/Mg2+ binding site [chemical binding]; other site 231023015380 Switch I region; other site 231023015381 Switch II region; other site 231023015382 G4 box; other site 231023015383 G5 box; other site 231023015384 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 231023015385 active site 231023015386 catalytic site [active] 231023015387 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 231023015388 Sulfatase; Region: Sulfatase; pfam00884 231023015389 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 231023015390 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 231023015391 putative active site [active] 231023015392 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 231023015393 AAA domain; Region: AAA_28; pfam13521 231023015394 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 231023015395 Cache domain; Region: Cache_2; pfam08269 231023015396 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023015397 dimerization interface [polypeptide binding]; other site 231023015398 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 231023015399 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 231023015400 dimer interface [polypeptide binding]; other site 231023015401 putative CheW interface [polypeptide binding]; other site 231023015402 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 231023015403 Predicted membrane protein [Function unknown]; Region: COG3326 231023015404 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 231023015405 LysR family transcriptional regulator; Provisional; Region: PRK14997 231023015406 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023015407 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 231023015408 dimerization interface [polypeptide binding]; other site 231023015409 azoreductase; Reviewed; Region: PRK00170 231023015410 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 231023015411 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 231023015412 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 231023015413 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 231023015414 sequence-specific DNA binding site [nucleotide binding]; other site 231023015415 salt bridge; other site 231023015416 Cupin domain; Region: Cupin_2; pfam07883 231023015417 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 231023015418 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 231023015419 putative active site [active] 231023015420 putative FMN binding site [chemical binding]; other site 231023015421 putative substrate binding site [chemical binding]; other site 231023015422 putative catalytic residue [active] 231023015423 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 231023015424 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 231023015425 aldolase II superfamily protein; Provisional; Region: PRK07044 231023015426 intersubunit interface [polypeptide binding]; other site 231023015427 active site 231023015428 Zn2+ binding site [ion binding]; other site 231023015429 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 231023015430 EamA-like transporter family; Region: EamA; pfam00892 231023015431 Uncharacterized conserved protein [Function unknown]; Region: COG0393 231023015432 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 231023015433 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 231023015434 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 231023015435 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 231023015436 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 231023015437 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 231023015438 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 231023015439 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 231023015440 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 231023015441 putative NAD(P) binding site [chemical binding]; other site 231023015442 active site 231023015443 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 231023015444 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 231023015445 putative catalytic residue [active] 231023015446 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 231023015447 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 231023015448 salt bridge; other site 231023015449 non-specific DNA binding site [nucleotide binding]; other site 231023015450 sequence-specific DNA binding site [nucleotide binding]; other site 231023015451 Cupin domain; Region: Cupin_2; pfam07883 231023015452 Major Facilitator Superfamily; Region: MFS_1; pfam07690 231023015453 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 231023015454 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 231023015455 putative heme binding pocket [chemical binding]; other site 231023015456 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 231023015457 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 231023015458 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 231023015459 DNA binding residues [nucleotide binding] 231023015460 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 231023015461 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 231023015462 putative catalytic site [active] 231023015463 putative phosphate binding site [ion binding]; other site 231023015464 active site 231023015465 metal binding site A [ion binding]; metal-binding site 231023015466 DNA binding site [nucleotide binding] 231023015467 putative AP binding site [nucleotide binding]; other site 231023015468 putative metal binding site B [ion binding]; other site 231023015469 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 231023015470 Coenzyme A binding pocket [chemical binding]; other site 231023015471 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 231023015472 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 231023015473 Surface antigen; Region: Bac_surface_Ag; pfam01103 231023015474 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 231023015475 Family of unknown function (DUF490); Region: DUF490; pfam04357 231023015476 Family of unknown function (DUF490); Region: DUF490; pfam04357 231023015477 Protein of unknown function (DUF2589); Region: DUF2589; pfam11655 231023015478 Protein of unknown function (DUF2589); Region: DUF2589; pfam11655 231023015479 Mor transcription activator family; Region: Mor; cl02360 231023015480 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 231023015481 Penicillin amidase; Region: Penicil_amidase; pfam01804 231023015482 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 231023015483 Cephalosporin acylase (CA) belongs to a family of beta-lactam acylases that includes penicillin G acylase (PGA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_CA; cd01936 231023015484 active site 231023015485 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 231023015486 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 231023015487 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 231023015488 putative active site [active] 231023015489 putative metal binding site [ion binding]; other site 231023015490 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 231023015491 substrate binding site [chemical binding]; other site 231023015492 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 231023015493 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 231023015494 active site 231023015495 HIGH motif; other site 231023015496 nucleotide binding site [chemical binding]; other site 231023015497 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 231023015498 KMSKS motif; other site 231023015499 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 231023015500 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 231023015501 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 231023015502 active site 231023015503 HIGH motif; other site 231023015504 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 231023015505 KMSKS motif; other site 231023015506 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 231023015507 tRNA binding surface [nucleotide binding]; other site 231023015508 anticodon binding site; other site 231023015509 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 231023015510 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 231023015511 dimerization interface [polypeptide binding]; other site 231023015512 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023015513 dimer interface [polypeptide binding]; other site 231023015514 phosphorylation site [posttranslational modification] 231023015515 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023015516 ATP binding site [chemical binding]; other site 231023015517 Mg2+ binding site [ion binding]; other site 231023015518 G-X-G motif; other site 231023015519 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 231023015520 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023015521 active site 231023015522 phosphorylation site [posttranslational modification] 231023015523 intermolecular recognition site; other site 231023015524 dimerization interface [polypeptide binding]; other site 231023015525 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 231023015526 DNA binding site [nucleotide binding] 231023015527 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 231023015528 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023015529 DNA-binding site [nucleotide binding]; DNA binding site 231023015530 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 231023015531 carbon starvation induced protein; Validated; Region: PRK02963 231023015532 substrate binding pocket [chemical binding]; other site 231023015533 active site 231023015534 iron coordination sites [ion binding]; other site 231023015535 Predicted dehydrogenase [General function prediction only]; Region: COG0579 231023015536 hydroxyglutarate oxidase; Provisional; Region: PRK11728 231023015537 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 231023015538 Spore germination protein; Region: Spore_permease; cl17796 231023015539 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 231023015540 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 231023015541 ATP binding site [chemical binding]; other site 231023015542 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 231023015543 dimer interface [polypeptide binding]; other site 231023015544 active site 231023015545 Schiff base residues; other site 231023015546 proline/glycine betaine transporter; Provisional; Region: PRK10642 231023015547 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 231023015548 putative substrate translocation pore; other site 231023015549 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 231023015550 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 231023015551 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 231023015552 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 231023015553 Lumazine binding domain; Region: Lum_binding; pfam00677 231023015554 Lumazine binding domain; Region: Lum_binding; pfam00677 231023015555 trehalose synthase, Pseudomonas stutzeri type; Region: TreS_stutzeri; TIGR02455 231023015556 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023015557 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023015558 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 231023015559 putative substrate binding pocket [chemical binding]; other site 231023015560 dimerization interface [polypeptide binding]; other site 231023015561 hypothetical protein; Provisional; Region: PRK12569 231023015562 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 231023015563 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 231023015564 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 231023015565 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 231023015566 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 231023015567 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 231023015568 FeS/SAM binding site; other site 231023015569 malate:quinone oxidoreductase; Validated; Region: PRK05257 231023015570 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 231023015571 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 231023015572 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 231023015573 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 231023015574 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 231023015575 Methyltransferase domain; Region: Methyltransf_31; pfam13847 231023015576 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 231023015577 S-adenosylmethionine binding site [chemical binding]; other site 231023015578 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 231023015579 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 231023015580 NAD(P) binding pocket [chemical binding]; other site 231023015581 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 231023015582 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 231023015583 dimer interface [polypeptide binding]; other site 231023015584 active site 231023015585 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 231023015586 catalytic residues [active] 231023015587 substrate binding site [chemical binding]; other site 231023015588 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 231023015589 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 231023015590 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 231023015591 catalytic residue [active] 231023015592 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 231023015593 YheO-like PAS domain; Region: PAS_6; pfam08348 231023015594 HTH domain; Region: HTH_22; pfam13309 231023015595 amidase; Validated; Region: PRK06565 231023015596 Amidase; Region: Amidase; cl11426 231023015597 Amidase; Region: Amidase; cl11426 231023015598 Transposase; Region: DEDD_Tnp_IS110; pfam01548 231023015599 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 231023015600 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 231023015601 putative S-transferase; Provisional; Region: PRK11752 231023015602 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 231023015603 C-terminal domain interface [polypeptide binding]; other site 231023015604 GSH binding site (G-site) [chemical binding]; other site 231023015605 dimer interface [polypeptide binding]; other site 231023015606 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 231023015607 dimer interface [polypeptide binding]; other site 231023015608 N-terminal domain interface [polypeptide binding]; other site 231023015609 active site 231023015610 major facilitator superfamily transporter; Provisional; Region: PRK05122 231023015611 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 231023015612 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 231023015613 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 231023015614 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023015615 Walker A/P-loop; other site 231023015616 ATP binding site [chemical binding]; other site 231023015617 ABC transporter signature motif; other site 231023015618 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 231023015619 Walker B; other site 231023015620 ABC transporter; Region: ABC_tran_2; pfam12848 231023015621 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 231023015622 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 231023015623 DNA binding site [nucleotide binding] 231023015624 active site 231023015625 Int/Topo IB signature motif; other site 231023015626 OsmC-like protein; Region: OsmC; cl00767 231023015627 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 231023015628 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 231023015629 diaminopimelate epimerase; Provisional; Region: PRK13577 231023015630 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 231023015631 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 231023015632 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 231023015633 HTH domain; Region: HTH_11; pfam08279 231023015634 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 231023015635 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 231023015636 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 231023015637 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023015638 active site 231023015639 phosphorylation site [posttranslational modification] 231023015640 intermolecular recognition site; other site 231023015641 dimerization interface [polypeptide binding]; other site 231023015642 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 231023015643 Zn2+ binding site [ion binding]; other site 231023015644 Mg2+ binding site [ion binding]; other site 231023015645 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 231023015646 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 231023015647 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023015648 ATP binding site [chemical binding]; other site 231023015649 Mg2+ binding site [ion binding]; other site 231023015650 G-X-G motif; other site 231023015651 Response regulator receiver domain; Region: Response_reg; pfam00072 231023015652 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023015653 active site 231023015654 phosphorylation site [posttranslational modification] 231023015655 intermolecular recognition site; other site 231023015656 dimerization interface [polypeptide binding]; other site 231023015657 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 231023015658 dimer interface [polypeptide binding]; other site 231023015659 phosphorylation site [posttranslational modification] 231023015660 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023015661 ATP binding site [chemical binding]; other site 231023015662 Mg2+ binding site [ion binding]; other site 231023015663 G-X-G motif; other site 231023015664 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 231023015665 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 231023015666 Coenzyme A binding pocket [chemical binding]; other site 231023015667 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 231023015668 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 231023015669 ApbE family; Region: ApbE; pfam02424 231023015670 Flavodoxin; Region: Flavodoxin_1; pfam00258 231023015671 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_like2; cd06201 231023015672 FAD binding pocket [chemical binding]; other site 231023015673 FAD binding motif [chemical binding]; other site 231023015674 catalytic residues [active] 231023015675 NAD binding pocket [chemical binding]; other site 231023015676 phosphate binding motif [ion binding]; other site 231023015677 beta-alpha-beta structure motif; other site 231023015678 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 231023015679 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 231023015680 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 231023015681 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023015682 active site 231023015683 phosphorylation site [posttranslational modification] 231023015684 intermolecular recognition site; other site 231023015685 dimerization interface [polypeptide binding]; other site 231023015686 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 231023015687 DNA binding site [nucleotide binding] 231023015688 sensor protein QseC; Provisional; Region: PRK10337 231023015689 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 231023015690 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023015691 dimer interface [polypeptide binding]; other site 231023015692 phosphorylation site [posttranslational modification] 231023015693 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023015694 ATP binding site [chemical binding]; other site 231023015695 Mg2+ binding site [ion binding]; other site 231023015696 G-X-G motif; other site 231023015697 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 231023015698 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 231023015699 DNA-binding site [nucleotide binding]; DNA binding site 231023015700 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 231023015701 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023015702 homodimer interface [polypeptide binding]; other site 231023015703 catalytic residue [active] 231023015704 EamA-like transporter family; Region: EamA; pfam00892 231023015705 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 231023015706 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023015707 PAS fold; Region: PAS_3; pfam08447 231023015708 heme pocket [chemical binding]; other site 231023015709 putative active site [active] 231023015710 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023015711 PAS fold; Region: PAS_3; pfam08447 231023015712 putative active site [active] 231023015713 heme pocket [chemical binding]; other site 231023015714 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 231023015715 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 231023015716 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 231023015717 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 231023015718 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 231023015719 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 231023015720 putative TOMM peptide; Region: TOMM_nitrile_2; TIGR04351 231023015721 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 231023015722 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 231023015723 amidase; Provisional; Region: PRK07235 231023015724 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 231023015725 heme-binding site [chemical binding]; other site 231023015726 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 231023015727 Haem-containing dehydratase; Region: Dehydratase_hem; pfam13816 231023015728 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 231023015729 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023015730 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 231023015731 putative transcriptional regulator; Provisional; Region: PRK11640 231023015732 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 231023015733 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023015734 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023015735 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 231023015736 putative effector binding pocket; other site 231023015737 dimerization interface [polypeptide binding]; other site 231023015738 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 231023015739 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 231023015740 putative NAD(P) binding site [chemical binding]; other site 231023015741 dimer interface [polypeptide binding]; other site 231023015742 Uncharacterized conserved protein [Function unknown]; Region: COG1359 231023015743 Protein of unknown function (DUF4239); Region: DUF4239; pfam14023 231023015744 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 231023015745 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 231023015746 Cl binding site [ion binding]; other site 231023015747 oligomer interface [polypeptide binding]; other site 231023015748 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 231023015749 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 231023015750 ATP-grasp domain; Region: ATP-grasp_4; cl17255 231023015751 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 231023015752 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 231023015753 Peptidase_C39 like family; Region: DUF3335; pfam11814 231023015754 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 231023015755 GSH binding site [chemical binding]; other site 231023015756 catalytic residues [active] 231023015757 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 231023015758 Cupin; Region: Cupin_6; pfam12852 231023015759 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023015760 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 231023015761 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023015762 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023015763 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023015764 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 231023015765 putative effector binding pocket; other site 231023015766 dimerization interface [polypeptide binding]; other site 231023015767 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 231023015768 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 231023015769 putative NAD(P) binding site [chemical binding]; other site 231023015770 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 231023015771 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 231023015772 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 231023015773 active site 231023015774 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 231023015775 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 231023015776 DNA binding residues [nucleotide binding] 231023015777 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 231023015778 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 231023015779 putative active site [active] 231023015780 putative FMN binding site [chemical binding]; other site 231023015781 putative substrate binding site [chemical binding]; other site 231023015782 putative catalytic residue [active] 231023015783 classical (c) SDRs; Region: SDR_c; cd05233 231023015784 NAD(P) binding site [chemical binding]; other site 231023015785 active site 231023015786 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023015787 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023015788 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 231023015789 substrate binding pocket [chemical binding]; other site 231023015790 dimerization interface [polypeptide binding]; other site 231023015791 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 231023015792 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 231023015793 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 231023015794 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 231023015795 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 231023015796 active site 231023015797 metal binding site [ion binding]; metal-binding site 231023015798 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 231023015799 active site 231023015800 catalytic site [active] 231023015801 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 231023015802 CoA-transferase family III; Region: CoA_transf_3; pfam02515 231023015803 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 231023015804 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 231023015805 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 231023015806 shikimate binding site; other site 231023015807 NAD(P) binding site [chemical binding]; other site 231023015808 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 231023015809 Dehydroquinase class II; Region: DHquinase_II; pfam01220 231023015810 trimer interface [polypeptide binding]; other site 231023015811 active site 231023015812 dimer interface [polypeptide binding]; other site 231023015813 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 231023015814 putative substrate translocation pore; other site 231023015815 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 231023015816 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 231023015817 Anti-sigma-K factor rskA; Region: RskA; pfam10099 231023015818 RNA polymerase sigma factor; Provisional; Region: PRK12537 231023015819 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 231023015820 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 231023015821 DNA binding residues [nucleotide binding] 231023015822 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 231023015823 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 231023015824 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 231023015825 NADP binding site [chemical binding]; other site 231023015826 dimer interface [polypeptide binding]; other site 231023015827 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 231023015828 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 231023015829 substrate binding pocket [chemical binding]; other site 231023015830 active site 231023015831 iron coordination sites [ion binding]; other site 231023015832 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 231023015833 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 231023015834 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 231023015835 putative substrate translocation pore; other site 231023015836 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 231023015837 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 231023015838 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 231023015839 SurA N-terminal domain; Region: SurA_N; pfam09312 231023015840 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 231023015841 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 231023015842 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 231023015843 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 231023015844 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 231023015845 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 231023015846 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 231023015847 Protein export membrane protein; Region: SecD_SecF; cl14618 231023015848 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 231023015849 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 231023015850 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 231023015851 active site 231023015852 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 231023015853 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 231023015854 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 231023015855 acyl-activating enzyme (AAE) consensus motif; other site 231023015856 AMP binding site [chemical binding]; other site 231023015857 active site 231023015858 CoA binding site [chemical binding]; other site 231023015859 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK09822 231023015860 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 231023015861 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 231023015862 DNA binding site [nucleotide binding] 231023015863 active site 231023015864 Predicted amidohydrolase [General function prediction only]; Region: COG0388 231023015865 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 231023015866 active site 231023015867 catalytic triad [active] 231023015868 dimer interface [polypeptide binding]; other site 231023015869 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 231023015870 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 231023015871 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023015872 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 231023015873 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023015874 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 231023015875 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 231023015876 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 231023015877 Recombinase; Region: Recombinase; pfam07508 231023015878 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 231023015879 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 231023015880 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 231023015881 Prophage antirepressor [Transcription]; Region: COG3617 231023015882 BRO family, N-terminal domain; Region: Bro-N; smart01040 231023015883 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 231023015884 Catalytic site [active] 231023015885 DksA-like zinc finger domain containing protein; Region: PHA00080 231023015886 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 231023015887 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 231023015888 active site 231023015889 metal binding site [ion binding]; metal-binding site 231023015890 interdomain interaction site; other site 231023015891 Virulence-associated protein E; Region: VirE; pfam05272 231023015892 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; cl02380 231023015893 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 231023015894 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 231023015895 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 231023015896 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 231023015897 oligomer interface [polypeptide binding]; other site 231023015898 active site residues [active] 231023015899 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 231023015900 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 231023015901 ATP-binding sugar transporter from pro-phage; Region: Gifsy-2; cl05094 231023015902 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 231023015903 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 231023015904 Phage baseplate assembly protein W [General function prediction only]; Region: COG3628 231023015905 Baseplate J-like protein; Region: Baseplate_J; cl01294 231023015906 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 231023015907 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 231023015908 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 231023015909 Phage tail tube protein FII; Region: Phage_tube; pfam04985 231023015910 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 231023015911 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 231023015912 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 231023015913 Phage Tail Protein X; Region: Phage_tail_X; cl02088 231023015914 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 231023015915 Predicted chitinase [General function prediction only]; Region: COG3179 231023015916 catalytic residue [active] 231023015917 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 231023015918 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023015919 AAA domain; Region: AAA_21; pfam13304 231023015920 Walker A/P-loop; other site 231023015921 ATP binding site [chemical binding]; other site 231023015922 Q-loop/lid; other site 231023015923 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023015924 Q-loop/lid; other site 231023015925 ABC transporter signature motif; other site 231023015926 Walker B; other site 231023015927 D-loop; other site 231023015928 H-loop/switch region; other site 231023015929 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 231023015930 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 231023015931 Autotransporter beta-domain; Region: Autotransporter; smart00869 231023015932 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 231023015933 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 231023015934 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 231023015935 acyl-activating enzyme (AAE) consensus motif; other site 231023015936 putative AMP binding site [chemical binding]; other site 231023015937 putative active site [active] 231023015938 putative CoA binding site [chemical binding]; other site 231023015939 ecotin; Provisional; Region: PRK03719 231023015940 secondary substrate binding site; other site 231023015941 primary substrate binding site; other site 231023015942 inhibition loop; other site 231023015943 dimerization interface [polypeptide binding]; other site 231023015944 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 231023015945 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 231023015946 NAD binding site [chemical binding]; other site 231023015947 homotetramer interface [polypeptide binding]; other site 231023015948 homodimer interface [polypeptide binding]; other site 231023015949 substrate binding site [chemical binding]; other site 231023015950 active site 231023015951 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 231023015952 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 231023015953 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023015954 Walker B motif; other site 231023015955 arginine finger; other site 231023015956 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 231023015957 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 231023015958 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023015959 dimer interface [polypeptide binding]; other site 231023015960 conserved gate region; other site 231023015961 putative PBP binding loops; other site 231023015962 ABC-ATPase subunit interface; other site 231023015963 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 231023015964 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 231023015965 dimer interface [polypeptide binding]; other site 231023015966 conserved gate region; other site 231023015967 putative PBP binding loops; other site 231023015968 ABC-ATPase subunit interface; other site 231023015969 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 231023015970 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 231023015971 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 231023015972 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 231023015973 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 231023015974 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 231023015975 substrate binding site [chemical binding]; other site 231023015976 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 231023015977 Major Facilitator Superfamily; Region: MFS_1; pfam07690 231023015978 putative substrate translocation pore; other site 231023015979 Predicted permeases [General function prediction only]; Region: COG0679 231023015980 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 231023015981 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 231023015982 HlyD family secretion protein; Region: HlyD_3; pfam13437 231023015983 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 231023015984 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 231023015985 putative substrate translocation pore; other site 231023015986 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 231023015987 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 231023015988 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 231023015989 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023015990 Walker A/P-loop; other site 231023015991 ATP binding site [chemical binding]; other site 231023015992 Q-loop/lid; other site 231023015993 ABC transporter signature motif; other site 231023015994 Walker B; other site 231023015995 D-loop; other site 231023015996 H-loop/switch region; other site 231023015997 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 231023015998 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 231023015999 Protein of unknown function (DUF796); Region: DUF796; pfam05638 231023016000 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 231023016001 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 231023016002 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 231023016003 ligand binding site [chemical binding]; other site 231023016004 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 231023016005 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 231023016006 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 231023016007 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 231023016008 type IV / VI secretion system protein, DotU family; Region: IV_VI_DotU; TIGR03349 231023016009 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 231023016010 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 231023016011 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 231023016012 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 231023016013 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023016014 Walker A motif; other site 231023016015 ATP binding site [chemical binding]; other site 231023016016 Walker B motif; other site 231023016017 arginine finger; other site 231023016018 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023016019 Walker A motif; other site 231023016020 ATP binding site [chemical binding]; other site 231023016021 Walker B motif; other site 231023016022 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 231023016023 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 231023016024 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 231023016025 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 231023016026 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 231023016027 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 231023016028 Protein of unknown function (DUF877); Region: DUF877; pfam05943 231023016029 Protein of unknown function (DUF770); Region: DUF770; pfam05591 231023016030 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 231023016031 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 231023016032 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 231023016033 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 231023016034 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 231023016035 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 231023016036 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 231023016037 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 231023016038 PAAR motif; Region: PAAR_motif; pfam05488 231023016039 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 231023016040 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 231023016041 RHS Repeat; Region: RHS_repeat; cl11982 231023016042 RHS Repeat; Region: RHS_repeat; pfam05593 231023016043 RHS protein; Region: RHS; pfam03527 231023016044 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 231023016045 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 231023016046 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 231023016047 RHS Repeat; Region: RHS_repeat; pfam05593 231023016048 RHS Repeat; Region: RHS_repeat; cl11982 231023016049 RHS Repeat; Region: RHS_repeat; cl11982 231023016050 RHS protein; Region: RHS; pfam03527 231023016051 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 231023016052 Pput_2613-like deaminase; Region: Pput2613-deam; pfam14427 231023016053 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 231023016054 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 231023016055 RHS Repeat; Region: RHS_repeat; cl11982 231023016056 RHS protein; Region: RHS; pfam03527 231023016057 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 231023016058 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 231023016059 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 231023016060 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 231023016061 RHS Repeat; Region: RHS_repeat; cl11982 231023016062 RHS Repeat; Region: RHS_repeat; pfam05593 231023016063 RHS protein; Region: RHS; pfam03527 231023016064 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 231023016065 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 231023016066 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 231023016067 RHS Repeat; Region: RHS_repeat; cl11982 231023016068 Domain of unknown function (DUF4284); Region: DUF4284; pfam14112 231023016069 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 231023016070 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 231023016071 metal binding site [ion binding]; metal-binding site 231023016072 putative dimer interface [polypeptide binding]; other site 231023016073 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 231023016074 metabolite-proton symporter; Region: 2A0106; TIGR00883 231023016075 putative substrate translocation pore; other site 231023016076 amidase; Provisional; Region: PRK07486 231023016077 Amidase; Region: Amidase; cl11426 231023016078 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 231023016079 Transcriptional regulator [Transcription]; Region: IclR; COG1414 231023016080 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 231023016081 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023016082 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 231023016083 classical (c) SDRs; Region: SDR_c; cd05233 231023016084 NAD(P) binding site [chemical binding]; other site 231023016085 active site 231023016086 putative succinate dehydrogenase; Reviewed; Region: PRK12842 231023016087 Predicted oxidoreductase [General function prediction only]; Region: COG3573 231023016088 NIPSNAP; Region: NIPSNAP; pfam07978 231023016089 benzoate transport; Region: 2A0115; TIGR00895 231023016090 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 231023016091 putative substrate translocation pore; other site 231023016092 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 231023016093 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 231023016094 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 231023016095 motif II; other site 231023016096 LexA repressor; Provisional; Region: PRK12423 231023016097 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 231023016098 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 231023016099 Catalytic site [active] 231023016100 Uncharacterized conserved protein [Function unknown]; Region: COG4544 231023016101 DNA Polymerase Y-family; Region: PolY_like; cd03468 231023016102 active site 231023016103 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 231023016104 DNA binding site [nucleotide binding] 231023016105 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 231023016106 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 231023016107 putative active site [active] 231023016108 putative PHP Thumb interface [polypeptide binding]; other site 231023016109 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 231023016110 generic binding surface I; other site 231023016111 generic binding surface II; other site 231023016112 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 231023016113 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 231023016114 active site 231023016115 catalytic tetrad [active] 231023016116 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023016117 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023016118 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 231023016119 putative dimerization interface [polypeptide binding]; other site 231023016120 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 231023016121 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 231023016122 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 231023016123 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 231023016124 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 231023016125 non-specific DNA binding site [nucleotide binding]; other site 231023016126 salt bridge; other site 231023016127 sequence-specific DNA binding site [nucleotide binding]; other site 231023016128 Cupin domain; Region: Cupin_2; pfam07883 231023016129 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 231023016130 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 231023016131 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 231023016132 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 231023016133 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 231023016134 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 231023016135 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 231023016136 NAD binding site [chemical binding]; other site 231023016137 homodimer interface [polypeptide binding]; other site 231023016138 active site 231023016139 substrate binding site [chemical binding]; other site 231023016140 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 231023016141 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 231023016142 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 231023016143 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 231023016144 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 231023016145 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 231023016146 trimer interface [polypeptide binding]; other site 231023016147 active site 231023016148 substrate binding site [chemical binding]; other site 231023016149 CoA binding site [chemical binding]; other site 231023016150 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 231023016151 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 231023016152 Probable Catalytic site; other site 231023016153 metal-binding site 231023016154 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 231023016155 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 231023016156 trimer interface [polypeptide binding]; other site 231023016157 active site 231023016158 substrate binding site [chemical binding]; other site 231023016159 CoA binding site [chemical binding]; other site 231023016160 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 231023016161 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 231023016162 active site 231023016163 Protein of unknown function (DUF535); Region: DUF535; pfam04393 231023016164 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 231023016165 putative ADP-binding pocket [chemical binding]; other site 231023016166 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 231023016167 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 231023016168 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 231023016169 DXD motif; other site 231023016170 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 231023016171 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 231023016172 Bacterial sugar transferase; Region: Bac_transf; pfam02397 231023016173 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023016174 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 231023016175 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 231023016176 dimerization interface [polypeptide binding]; other site 231023016177 substrate binding pocket [chemical binding]; other site 231023016178 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 231023016179 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 231023016180 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 231023016181 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 231023016182 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 231023016183 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 231023016184 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 231023016185 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 231023016186 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 231023016187 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 231023016188 Helix-turn-helix domain; Region: HTH_18; pfam12833 231023016189 AAA domain; Region: AAA_30; pfam13604 231023016190 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 231023016191 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 231023016192 NAD(P) binding site [chemical binding]; other site 231023016193 catalytic residues [active] 231023016194 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023016195 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023016196 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 231023016197 putative dimerization interface [polypeptide binding]; other site 231023016198 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 231023016199 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 231023016200 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 231023016201 N-terminal plug; other site 231023016202 ligand-binding site [chemical binding]; other site 231023016203 universal stress protein UspE; Provisional; Region: PRK11175 231023016204 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 231023016205 Ligand Binding Site [chemical binding]; other site 231023016206 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 231023016207 Ligand Binding Site [chemical binding]; other site 231023016208 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 231023016209 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 231023016210 active site 231023016211 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 231023016212 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 231023016213 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 231023016214 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 231023016215 Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_HBDO; cd03542 231023016216 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 231023016217 putative alpha subunit interface [polypeptide binding]; other site 231023016218 putative active site [active] 231023016219 putative substrate binding site [chemical binding]; other site 231023016220 Fe binding site [ion binding]; other site 231023016221 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 231023016222 inter-subunit interface; other site 231023016223 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 231023016224 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 231023016225 catalytic loop [active] 231023016226 iron binding site [ion binding]; other site 231023016227 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 231023016228 FAD binding pocket [chemical binding]; other site 231023016229 FAD binding motif [chemical binding]; other site 231023016230 phosphate binding motif [ion binding]; other site 231023016231 beta-alpha-beta structure motif; other site 231023016232 NAD binding pocket [chemical binding]; other site 231023016233 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 231023016234 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 231023016235 putative NAD(P) binding site [chemical binding]; other site 231023016236 active site 231023016237 benzoate transport; Region: 2A0115; TIGR00895 231023016238 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 231023016239 putative substrate translocation pore; other site 231023016240 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 231023016241 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 231023016242 dimer interface [polypeptide binding]; other site 231023016243 active site 231023016244 Benzoate membrane transport protein; Region: BenE; pfam03594 231023016245 benzoate transporter; Region: benE; TIGR00843 231023016246 outer membrane porin, OprD family; Region: OprD; pfam03573 231023016247 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 231023016248 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023016249 LysR family transcriptional regulator; Provisional; Region: PRK14997 231023016250 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 231023016251 putative effector binding pocket; other site 231023016252 dimerization interface [polypeptide binding]; other site 231023016253 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 231023016254 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 231023016255 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 231023016256 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 231023016257 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 231023016258 FMN binding site [chemical binding]; other site 231023016259 active site 231023016260 substrate binding site [chemical binding]; other site 231023016261 catalytic residue [active] 231023016262 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 231023016263 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 231023016264 active site 231023016265 catalytic tetrad [active] 231023016266 AIFL (apoptosis-inducing factor like) family, N-terminal Rieske domain; members of this family show similarity to human AIFL, containing an N-terminal Rieske domain and a C-terminal pyridine nucleotide-disulfide oxidoreductase domain (Pyr_redox). The...; Region: Rieske_AIFL_N; cd03478 231023016267 [2Fe-2S] cluster binding site [ion binding]; other site 231023016268 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 231023016269 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 231023016270 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 231023016271 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 231023016272 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 231023016273 putative substrate translocation pore; other site 231023016274 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 231023016275 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 231023016276 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 231023016277 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 231023016278 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 231023016279 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023016280 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 231023016281 dimerization interface [polypeptide binding]; other site 231023016282 substrate binding pocket [chemical binding]; other site 231023016283 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 231023016284 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 231023016285 DNA binding site [nucleotide binding] 231023016286 dimer interface [polypeptide binding]; other site 231023016287 active site 231023016288 Int/Topo IB signature motif; other site 231023016289 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 231023016290 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023016291 metal binding site [ion binding]; metal-binding site 231023016292 active site 231023016293 I-site; other site 231023016294 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 231023016295 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 231023016296 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 231023016297 Cu(I) binding site [ion binding]; other site 231023016298 Cytochrome c; Region: Cytochrom_C; pfam00034 231023016299 Transcription factor PAP1; Region: PAP1; pfam08601 231023016300 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 231023016301 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 231023016302 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 231023016303 Putative transcription activator [Transcription]; Region: TenA; COG0819 231023016304 cytosine permease; Provisional; Region: codB; PRK11017 231023016305 Na binding site [ion binding]; other site 231023016306 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 231023016307 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 231023016308 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 231023016309 cytosine deaminase; Provisional; Region: PRK09230 231023016310 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 fungi; Region: Bact_CD; cd01293 231023016311 active site 231023016312 ornithine cyclodeaminase; Validated; Region: PRK06823 231023016313 ectoine utilization protein EutC; Validated; Region: PRK08291 231023016314 hypothetical protein; Provisional; Region: PRK06815 231023016315 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 231023016316 tetramer interface [polypeptide binding]; other site 231023016317 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023016318 catalytic residue [active] 231023016319 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 231023016320 YheO-like PAS domain; Region: PAS_6; pfam08348 231023016321 HTH domain; Region: HTH_22; pfam13309 231023016322 Inter-alpha-trypsin inhibitor heavy chain C-terminus; Region: ITI_HC_C; pfam06668 231023016323 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 231023016324 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 231023016325 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 231023016326 Cache domain; Region: Cache_1; pfam02743 231023016327 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 231023016328 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023016329 metal binding site [ion binding]; metal-binding site 231023016330 active site 231023016331 I-site; other site 231023016332 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 231023016333 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 231023016334 MgtC family; Region: MgtC; pfam02308 231023016335 beta-carotene hydroxylase; Region: PLN02601 231023016336 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 231023016337 Sodium Bile acid symporter family; Region: SBF; pfam01758 231023016338 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 231023016339 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 231023016340 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 231023016341 active site 231023016342 catalytic tetrad [active] 231023016343 TLC ATP/ADP transporter; Region: TLC; cl03940 231023016344 TLC ATP/ADP transporter; Region: TLC; cl03940 231023016345 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 231023016346 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 231023016347 S-adenosylmethionine binding site [chemical binding]; other site 231023016348 carboxylate-amine ligase; Provisional; Region: PRK13515 231023016349 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 231023016350 nucleosidase; Provisional; Region: PRK05634 231023016351 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 231023016352 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 231023016353 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 231023016354 putative DNA binding site [nucleotide binding]; other site 231023016355 putative homodimer interface [polypeptide binding]; other site 231023016356 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 231023016357 active site 231023016358 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 231023016359 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 231023016360 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 231023016361 active site 231023016362 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 231023016363 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 231023016364 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 231023016365 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 231023016366 active site 231023016367 DNA binding site [nucleotide binding] 231023016368 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 231023016369 DNA binding site [nucleotide binding] 231023016370 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 231023016371 nucleotide binding site [chemical binding]; other site 231023016372 Predicted integral membrane protein [Function unknown]; Region: COG0392 231023016373 cardiolipin synthase 2; Provisional; Region: PRK11263 231023016374 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 231023016375 putative active site [active] 231023016376 catalytic site [active] 231023016377 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 231023016378 putative active site [active] 231023016379 catalytic site [active] 231023016380 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 231023016381 putative catalytic site [active] 231023016382 putative metal binding site [ion binding]; other site 231023016383 putative phosphate binding site [ion binding]; other site 231023016384 Protein of unknown function DUF72; Region: DUF72; pfam01904 231023016385 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 231023016386 active site 231023016387 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_10; cd04667 231023016388 nudix motif; other site 231023016389 General stress protein [General function prediction only]; Region: GsiB; COG3729 231023016390 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 231023016391 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 231023016392 substrate binding site [chemical binding]; other site 231023016393 dimer interface [polypeptide binding]; other site 231023016394 NADP binding site [chemical binding]; other site 231023016395 catalytic residues [active] 231023016396 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 231023016397 substrate binding site [chemical binding]; other site 231023016398 outer membrane porin, OprD family; Region: OprD; pfam03573 231023016399 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 231023016400 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 231023016401 Na binding site [ion binding]; other site 231023016402 Protein of unknown function, DUF485; Region: DUF485; pfam04341 231023016403 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 231023016404 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 231023016405 FAD binding pocket [chemical binding]; other site 231023016406 FAD binding motif [chemical binding]; other site 231023016407 phosphate binding motif [ion binding]; other site 231023016408 beta-alpha-beta structure motif; other site 231023016409 NAD(p) ribose binding residues [chemical binding]; other site 231023016410 NAD binding pocket [chemical binding]; other site 231023016411 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 231023016412 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 231023016413 catalytic loop [active] 231023016414 iron binding site [ion binding]; other site 231023016415 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 231023016416 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 231023016417 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 231023016418 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 231023016419 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 231023016420 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 231023016421 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 231023016422 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 231023016423 active site 231023016424 AMP binding site [chemical binding]; other site 231023016425 homodimer interface [polypeptide binding]; other site 231023016426 acyl-activating enzyme (AAE) consensus motif; other site 231023016427 CoA binding site [chemical binding]; other site 231023016428 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 231023016429 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 231023016430 dimer interface [polypeptide binding]; other site 231023016431 active site 231023016432 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 231023016433 CoenzymeA binding site [chemical binding]; other site 231023016434 subunit interaction site [polypeptide binding]; other site 231023016435 PHB binding site; other site 231023016436 3-hydroxyacyl-CoA dehydrogenase PaaC; Region: PaaC-3OHAcCoADH; TIGR02279 231023016437 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 231023016438 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 231023016439 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 231023016440 enoyl-CoA hydratase; Provisional; Region: PRK08140 231023016441 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 231023016442 substrate binding site [chemical binding]; other site 231023016443 oxyanion hole (OAH) forming residues; other site 231023016444 trimer interface [polypeptide binding]; other site 231023016445 enoyl-CoA hydratase-isomerase; Provisional; Region: PRK09674 231023016446 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 231023016447 substrate binding site [chemical binding]; other site 231023016448 oxyanion hole (OAH) forming residues; other site 231023016449 trimer interface [polypeptide binding]; other site 231023016450 phenylacetic acid degradation protein PaaY; Region: PaaY; TIGR02287 231023016451 paaY-like: This group is composed by uncharacterized proteins with similarity to the protein product of the E. coli paaY gene, which is part of the paa gene cluster responsible for phenylacetic acid degradation. Proteins in this group are expected to...; Region: LbH_paaY_like; cd04745 231023016452 putative trimer interface [polypeptide binding]; other site 231023016453 putative metal binding site [ion binding]; other site 231023016454 PaaX-like protein; Region: PaaX; pfam07848 231023016455 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 231023016456 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 231023016457 Predicted membrane protein [Function unknown]; Region: COG3174 231023016458 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 231023016459 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 231023016460 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 231023016461 ligand binding site [chemical binding]; other site 231023016462 flexible hinge region; other site 231023016463 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 231023016464 putative switch regulator; other site 231023016465 non-specific DNA interactions [nucleotide binding]; other site 231023016466 DNA binding site [nucleotide binding] 231023016467 sequence specific DNA binding site [nucleotide binding]; other site 231023016468 putative cAMP binding site [chemical binding]; other site 231023016469 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 231023016470 Ligand Binding Site [chemical binding]; other site 231023016471 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 231023016472 Coenzyme A binding pocket [chemical binding]; other site 231023016473 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 231023016474 Ligand Binding Site [chemical binding]; other site 231023016475 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 231023016476 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 231023016477 Beta-Casp domain; Region: Beta-Casp; smart01027 231023016478 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 231023016479 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 231023016480 Protein of unknown function, DUF399; Region: DUF399; cl01139 231023016481 Erythromycin esterase; Region: Erythro_esteras; pfam05139 231023016482 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 231023016483 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 231023016484 ligand binding site [chemical binding]; other site 231023016485 flexible hinge region; other site 231023016486 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 231023016487 putative switch regulator; other site 231023016488 non-specific DNA interactions [nucleotide binding]; other site 231023016489 DNA binding site [nucleotide binding] 231023016490 sequence specific DNA binding site [nucleotide binding]; other site 231023016491 putative cAMP binding site [chemical binding]; other site 231023016492 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 231023016493 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 231023016494 putative dimer interface [polypeptide binding]; other site 231023016495 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 231023016496 putative phosphoketolase; Provisional; Region: PRK05261 231023016497 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 231023016498 TPP-binding site; other site 231023016499 XFP C-terminal domain; Region: XFP_C; pfam09363 231023016500 Ion channel; Region: Ion_trans_2; pfam07885 231023016501 FtsH Extracellular; Region: FtsH_ext; pfam06480 231023016502 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 231023016503 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023016504 Walker A motif; other site 231023016505 ATP binding site [chemical binding]; other site 231023016506 Walker B motif; other site 231023016507 arginine finger; other site 231023016508 Peptidase family M41; Region: Peptidase_M41; pfam01434 231023016509 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 231023016510 BON domain; Region: BON; pfam04972 231023016511 BON domain; Region: BON; pfam04972 231023016512 BON domain; Region: BON; pfam04972 231023016513 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 231023016514 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 231023016515 Soluble P-type ATPase [General function prediction only]; Region: COG4087 231023016516 Hemerythrin-like domain; Region: Hr-like; cd12108 231023016517 Fe binding site [ion binding]; other site 231023016518 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 231023016519 Ligand Binding Site [chemical binding]; other site 231023016520 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 231023016521 Ligand Binding Site [chemical binding]; other site 231023016522 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 231023016523 Ligand Binding Site [chemical binding]; other site 231023016524 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 231023016525 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 231023016526 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 231023016527 Predicted transporter component [General function prediction only]; Region: COG2391 231023016528 Sulphur transport; Region: Sulf_transp; pfam04143 231023016529 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 231023016530 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 231023016531 active site 231023016532 DNA binding site [nucleotide binding] 231023016533 Int/Topo IB signature motif; other site 231023016534 AAA domain; Region: AAA_22; pfam13401 231023016535 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 231023016536 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 231023016537 non-specific DNA binding site [nucleotide binding]; other site 231023016538 salt bridge; other site 231023016539 sequence-specific DNA binding site [nucleotide binding]; other site 231023016540 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 231023016541 active site 231023016542 DNA binding site [nucleotide binding] 231023016543 Int/Topo IB signature motif; other site 231023016544 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 231023016545 NAD(P) binding site [chemical binding]; other site 231023016546 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 231023016547 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 231023016548 metal binding site [ion binding]; metal-binding site 231023016549 putative dimer interface [polypeptide binding]; other site 231023016550 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 231023016551 metabolite-proton symporter; Region: 2A0106; TIGR00883 231023016552 putative substrate translocation pore; other site 231023016553 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023016554 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023016555 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 231023016556 dimerization interface [polypeptide binding]; other site 231023016557 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023016558 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023016559 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_6; cd08475 231023016560 putative effector binding pocket; other site 231023016561 putative dimerization interface [polypeptide binding]; other site 231023016562 Predicted esterase [General function prediction only]; Region: COG0400 231023016563 putative hydrolase; Provisional; Region: PRK11460 231023016564 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 231023016565 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 231023016566 putative active site [active] 231023016567 metal binding site [ion binding]; metal-binding site 231023016568 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 231023016569 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 231023016570 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 231023016571 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 231023016572 dimer interface [polypeptide binding]; other site 231023016573 FMN binding site [chemical binding]; other site 231023016574 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 231023016575 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 231023016576 active site 1 [active] 231023016577 dimer interface [polypeptide binding]; other site 231023016578 hexamer interface [polypeptide binding]; other site 231023016579 active site 2 [active] 231023016580 Predicted membrane protein [Function unknown]; Region: COG2259 231023016581 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023016582 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023016583 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 231023016584 putative effector binding pocket; other site 231023016585 dimerization interface [polypeptide binding]; other site 231023016586 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 231023016587 classical (c) SDRs; Region: SDR_c; cd05233 231023016588 NAD(P) binding site [chemical binding]; other site 231023016589 active site 231023016590 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 231023016591 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 231023016592 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 231023016593 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 231023016594 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 231023016595 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 231023016596 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 231023016597 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 231023016598 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023016599 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023016600 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_7; cd08476 231023016601 putative effector binding pocket; other site 231023016602 putative dimerization interface [polypeptide binding]; other site 231023016603 Predicted transcriptional regulators [Transcription]; Region: ArsR; COG0640 231023016604 dimerization interface [polypeptide binding]; other site 231023016605 putative DNA binding site [nucleotide binding]; other site 231023016606 putative Zn2+ binding site [ion binding]; other site 231023016607 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023016608 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023016609 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 231023016610 substrate binding pocket [chemical binding]; other site 231023016611 dimerization interface [polypeptide binding]; other site 231023016612 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023016613 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023016614 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 231023016615 dimerizarion interface [polypeptide binding]; other site 231023016616 CrgA pocket; other site 231023016617 substrate binding pocket [chemical binding]; other site 231023016618 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 231023016619 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 231023016620 octamer interface [polypeptide binding]; other site 231023016621 active site 231023016622 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 231023016623 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 231023016624 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 231023016625 dimer interface [polypeptide binding]; other site 231023016626 active site 231023016627 SAM (Sterile alpha motif ); Region: SAM_superfamily; cl15755 231023016628 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 231023016629 Int/Topo IB signature motif; other site 231023016630 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 231023016631 active site 231023016632 DNA binding site [nucleotide binding] 231023016633 Int/Topo IB signature motif; other site 231023016634 Integrase core domain; Region: rve; pfam00665 231023016635 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 231023016636 Bacterial TniB protein; Region: TniB; pfam05621 231023016637 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 231023016638 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 231023016639 DNA binding site [nucleotide binding] 231023016640 Int/Topo IB signature motif; other site 231023016641 active site 231023016642 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 231023016643 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 231023016644 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 231023016645 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 231023016646 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 231023016647 benzoate transport; Region: 2A0115; TIGR00895 231023016648 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 231023016649 putative substrate translocation pore; other site 231023016650 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 231023016651 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 231023016652 active site 231023016653 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 231023016654 catalytic triad [active] 231023016655 dimer interface [polypeptide binding]; other site 231023016656 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 231023016657 Coenzyme A transferase; Region: CoA_trans; cl17247 231023016658 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023016659 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023016660 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 231023016661 putative dimerization interface [polypeptide binding]; other site 231023016662 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 231023016663 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 231023016664 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 231023016665 acetyl-CoA acetyltransferase; Provisional; Region: PRK06205 231023016666 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 231023016667 dimer interface [polypeptide binding]; other site 231023016668 active site 231023016669 outer membrane porin, OprD family; Region: OprD; pfam03573 231023016670 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 231023016671 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 231023016672 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 231023016673 active site 231023016674 Uncharacterized conserved protein [Function unknown]; Region: COG3777 231023016675 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 231023016676 active site 2 [active] 231023016677 active site 1 [active] 231023016678 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 231023016679 benzoate transport; Region: 2A0115; TIGR00895 231023016680 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 231023016681 putative substrate translocation pore; other site 231023016682 Methylmuconolactone methyl-isomerase; Region: MmlI; pfam09448 231023016683 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 231023016684 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 231023016685 metal binding site [ion binding]; metal-binding site 231023016686 putative dimer interface [polypeptide binding]; other site 231023016687 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 231023016688 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 231023016689 DNA binding site [nucleotide binding] 231023016690 dimer interface [polypeptide binding]; other site 231023016691 active site 231023016692 Int/Topo IB signature motif; other site 231023016693 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 231023016694 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 231023016695 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 231023016696 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 231023016697 SIR2-like domain; Region: SIR2_2; pfam13289 231023016698 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 231023016699 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 231023016700 sequence-specific DNA binding site [nucleotide binding]; other site 231023016701 salt bridge; other site 231023016702 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 231023016703 putrescine transporter; Provisional; Region: potE; PRK10655 231023016704 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 231023016705 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 231023016706 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023016707 substrate binding pocket [chemical binding]; other site 231023016708 membrane-bound complex binding site; other site 231023016709 hinge residues; other site 231023016710 hypothetical protein; Provisional; Region: PRK09256 231023016711 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 231023016712 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 231023016713 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 231023016714 thiamine pyrophosphate protein; Provisional; Region: PRK08273 231023016715 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 231023016716 PYR/PP interface [polypeptide binding]; other site 231023016717 dimer interface [polypeptide binding]; other site 231023016718 tetramer interface [polypeptide binding]; other site 231023016719 TPP binding site [chemical binding]; other site 231023016720 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 231023016721 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 decarboxylates...; Region: TPP_POX; cd02014 231023016722 TPP-binding site [chemical binding]; other site 231023016723 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 231023016724 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 231023016725 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 231023016726 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 231023016727 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 231023016728 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 231023016729 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 231023016730 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 231023016731 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 231023016732 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 231023016733 NAD binding site [chemical binding]; other site 231023016734 catalytic Zn binding site [ion binding]; other site 231023016735 structural Zn binding site [ion binding]; other site 231023016736 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 231023016737 short chain dehydrogenase; Provisional; Region: PRK06139 231023016738 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 231023016739 putative NAD(P) binding site [chemical binding]; other site 231023016740 active site 231023016741 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 231023016742 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 231023016743 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 231023016744 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 231023016745 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 231023016746 HlyD family secretion protein; Region: HlyD_3; pfam13437 231023016747 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 231023016748 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 231023016749 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 231023016750 dimer interface [polypeptide binding]; other site 231023016751 active site 231023016752 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 231023016753 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 231023016754 putative substrate translocation pore; other site 231023016755 putative GTP cyclohydrolase; Provisional; Region: PRK13674 231023016756 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 231023016757 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 231023016758 N-terminal plug; other site 231023016759 ligand-binding site [chemical binding]; other site 231023016760 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 231023016761 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 231023016762 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 231023016763 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 231023016764 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_18; cd08357 231023016765 putative metal binding site [ion binding]; other site 231023016766 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023016767 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023016768 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 231023016769 dimerization interface [polypeptide binding]; other site 231023016770 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 231023016771 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 231023016772 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 231023016773 N-terminal plug; other site 231023016774 ligand-binding site [chemical binding]; other site 231023016775 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 231023016776 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 231023016777 N-terminal plug; other site 231023016778 ligand-binding site [chemical binding]; other site 231023016779 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 231023016780 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 231023016781 metal binding site [ion binding]; metal-binding site 231023016782 active site 231023016783 I-site; other site 231023016784 mechanosensitive channel MscS; Provisional; Region: PRK10334 231023016785 Mechanosensitive ion channel; Region: MS_channel; pfam00924 231023016786 hypothetical protein; Provisional; Region: PRK06148 231023016787 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; cl17270 231023016788 active site 231023016789 ATP binding site [chemical binding]; other site 231023016790 substrate binding site [chemical binding]; other site 231023016791 Peptidase family M23; Region: Peptidase_M23; pfam01551 231023016792 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 231023016793 inhibitor-cofactor binding pocket; inhibition site 231023016794 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023016795 catalytic residue [active] 231023016796 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 231023016797 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 231023016798 AsnC family; Region: AsnC_trans_reg; pfam01037 231023016799 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 231023016800 PAS fold; Region: PAS_2; pfam08446 231023016801 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 231023016802 GAF domain; Region: GAF; pfam01590 231023016803 Phytochrome region; Region: PHY; pfam00360 231023016804 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 231023016805 HWE histidine kinase; Region: HWE_HK; pfam07536 231023016806 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 231023016807 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023016808 active site 231023016809 phosphorylation site [posttranslational modification] 231023016810 intermolecular recognition site; other site 231023016811 dimerization interface [polypeptide binding]; other site 231023016812 acetolactate synthase; Reviewed; Region: PRK08322 231023016813 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 231023016814 PYR/PP interface [polypeptide binding]; other site 231023016815 dimer interface [polypeptide binding]; other site 231023016816 TPP binding site [chemical binding]; other site 231023016817 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 231023016818 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 231023016819 TPP-binding site [chemical binding]; other site 231023016820 dimer interface [polypeptide binding]; other site 231023016821 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023016822 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023016823 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 231023016824 dimerization interface [polypeptide binding]; other site 231023016825 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 231023016826 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 231023016827 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 231023016828 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 231023016829 putative substrate translocation pore; other site 231023016830 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023016831 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023016832 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 231023016833 dimerization interface [polypeptide binding]; other site 231023016834 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 231023016835 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 231023016836 active site 231023016837 catalytic tetrad [active] 231023016838 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 231023016839 HAMP domain; Region: HAMP; pfam00672 231023016840 dimerization interface [polypeptide binding]; other site 231023016841 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023016842 dimer interface [polypeptide binding]; other site 231023016843 phosphorylation site [posttranslational modification] 231023016844 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023016845 ATP binding site [chemical binding]; other site 231023016846 Mg2+ binding site [ion binding]; other site 231023016847 G-X-G motif; other site 231023016848 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 231023016849 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023016850 active site 231023016851 phosphorylation site [posttranslational modification] 231023016852 intermolecular recognition site; other site 231023016853 dimerization interface [polypeptide binding]; other site 231023016854 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 231023016855 DNA binding site [nucleotide binding] 231023016856 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 231023016857 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 231023016858 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 231023016859 Surface antigen; Region: Bac_surface_Ag; pfam01103 231023016860 DNA-specific endonuclease I; Provisional; Region: PRK15137 231023016861 Endonuclease I; Region: Endonuclease_1; pfam04231 231023016862 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 231023016863 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 231023016864 dimerization interface [polypeptide binding]; other site 231023016865 ligand binding site [chemical binding]; other site 231023016866 NADP binding site [chemical binding]; other site 231023016867 catalytic site [active] 231023016868 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 231023016869 D-galactonate transporter; Region: 2A0114; TIGR00893 231023016870 putative substrate translocation pore; other site 231023016871 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 231023016872 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 231023016873 substrate binding site [chemical binding]; other site 231023016874 ATP binding site [chemical binding]; other site 231023016875 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 231023016876 Transcriptional regulators [Transcription]; Region: PurR; COG1609 231023016877 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 231023016878 DNA binding site [nucleotide binding] 231023016879 domain linker motif; other site 231023016880 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 231023016881 putative dimerization interface [polypeptide binding]; other site 231023016882 putative ligand binding site [chemical binding]; other site 231023016883 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 231023016884 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 231023016885 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 231023016886 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 231023016887 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 231023016888 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 231023016889 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 231023016890 catalytic core [active] 231023016891 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 231023016892 active site 231023016893 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 231023016894 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 231023016895 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 231023016896 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 231023016897 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 231023016898 outer membrane porin, OprD family; Region: OprD; pfam03573 231023016899 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 231023016900 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 231023016901 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 231023016902 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 231023016903 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 231023016904 trimer interface [polypeptide binding]; other site 231023016905 putative metal binding site [ion binding]; other site 231023016906 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 231023016907 CoA-transferase family III; Region: CoA_transf_3; pfam02515 231023016908 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 231023016909 active site 231023016910 catalytic residues [active] 231023016911 metal binding site [ion binding]; metal-binding site 231023016912 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023016913 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023016914 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 231023016915 putative dimerization interface [polypeptide binding]; other site 231023016916 Curlin associated repeat; Region: Curlin_rpt; pfam07012 231023016917 Curlin associated repeat; Region: Curlin_rpt; pfam07012 231023016918 Curlin associated repeat; Region: Curlin_rpt; pfam07012 231023016919 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 231023016920 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 231023016921 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 231023016922 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 231023016923 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 231023016924 Pirin-related protein [General function prediction only]; Region: COG1741 231023016925 Pirin; Region: Pirin; pfam02678 231023016926 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 231023016927 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 231023016928 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 231023016929 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 231023016930 putative acetyltransferase; Provisional; Region: PRK03624 231023016931 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 231023016932 Coenzyme A binding pocket [chemical binding]; other site 231023016933 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 231023016934 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 231023016935 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 231023016936 active site 231023016937 SAM binding site [chemical binding]; other site 231023016938 homodimer interface [polypeptide binding]; other site 231023016939 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 231023016940 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023016941 active site 231023016942 phosphorylation site [posttranslational modification] 231023016943 intermolecular recognition site; other site 231023016944 dimerization interface [polypeptide binding]; other site 231023016945 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 231023016946 DNA binding residues [nucleotide binding] 231023016947 dimerization interface [polypeptide binding]; other site 231023016948 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023016949 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 231023016950 substrate binding pocket [chemical binding]; other site 231023016951 membrane-bound complex binding site; other site 231023016952 hinge residues; other site 231023016953 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 231023016954 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 231023016955 substrate binding pocket [chemical binding]; other site 231023016956 membrane-bound complex binding site; other site 231023016957 hinge residues; other site 231023016958 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 231023016959 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023016960 dimer interface [polypeptide binding]; other site 231023016961 phosphorylation site [posttranslational modification] 231023016962 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023016963 ATP binding site [chemical binding]; other site 231023016964 Mg2+ binding site [ion binding]; other site 231023016965 G-X-G motif; other site 231023016966 Response regulator receiver domain; Region: Response_reg; pfam00072 231023016967 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023016968 active site 231023016969 phosphorylation site [posttranslational modification] 231023016970 intermolecular recognition site; other site 231023016971 dimerization interface [polypeptide binding]; other site 231023016972 Hpt domain; Region: Hpt; pfam01627 231023016973 putative binding surface; other site 231023016974 active site 231023016975 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023016976 PAS domain; Region: PAS_9; pfam13426 231023016977 putative active site [active] 231023016978 heme pocket [chemical binding]; other site 231023016979 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023016980 PAS domain; Region: PAS_9; pfam13426 231023016981 putative active site [active] 231023016982 heme pocket [chemical binding]; other site 231023016983 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 231023016984 dimer interface [polypeptide binding]; other site 231023016985 putative CheW interface [polypeptide binding]; other site 231023016986 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 231023016987 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 231023016988 putative ligand binding site [chemical binding]; other site 231023016989 putative dimerization interface [polypeptide binding]; other site 231023016990 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 231023016991 ATP-binding site [chemical binding]; other site 231023016992 Gluconate-6-phosphate binding site [chemical binding]; other site 231023016993 fructuronate transporter; Provisional; Region: PRK10034; cl15264 231023016994 GntP family permease; Region: GntP_permease; pfam02447 231023016995 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023016996 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 231023016997 active site 231023016998 phosphorylation site [posttranslational modification] 231023016999 intermolecular recognition site; other site 231023017000 dimerization interface [polypeptide binding]; other site 231023017001 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023017002 Walker A motif; other site 231023017003 ATP binding site [chemical binding]; other site 231023017004 Walker B motif; other site 231023017005 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 231023017006 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 231023017007 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023017008 dimer interface [polypeptide binding]; other site 231023017009 phosphorylation site [posttranslational modification] 231023017010 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023017011 ATP binding site [chemical binding]; other site 231023017012 Mg2+ binding site [ion binding]; other site 231023017013 G-X-G motif; other site 231023017014 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 231023017015 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023017016 dimer interface [polypeptide binding]; other site 231023017017 phosphorylation site [posttranslational modification] 231023017018 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023017019 ATP binding site [chemical binding]; other site 231023017020 Mg2+ binding site [ion binding]; other site 231023017021 G-X-G motif; other site 231023017022 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 231023017023 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 231023017024 N-acetyl-D-glucosamine binding site [chemical binding]; other site 231023017025 catalytic residue [active] 231023017026 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 231023017027 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 231023017028 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 231023017029 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 231023017030 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 231023017031 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 231023017032 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 231023017033 HlyD family secretion protein; Region: HlyD_3; pfam13437 231023017034 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 231023017035 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 231023017036 TPR repeat; Region: TPR_11; pfam13414 231023017037 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 231023017038 binding surface 231023017039 TPR motif; other site 231023017040 TPR repeat; Region: TPR_11; pfam13414 231023017041 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 231023017042 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 231023017043 dimer interface [polypeptide binding]; other site 231023017044 phosphorylation site [posttranslational modification] 231023017045 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023017046 ATP binding site [chemical binding]; other site 231023017047 Mg2+ binding site [ion binding]; other site 231023017048 G-X-G motif; other site 231023017049 Response regulator receiver domain; Region: Response_reg; pfam00072 231023017050 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023017051 active site 231023017052 phosphorylation site [posttranslational modification] 231023017053 intermolecular recognition site; other site 231023017054 dimerization interface [polypeptide binding]; other site 231023017055 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023017056 PAS domain; Region: PAS_9; pfam13426 231023017057 putative active site [active] 231023017058 heme pocket [chemical binding]; other site 231023017059 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023017060 ATP binding site [chemical binding]; other site 231023017061 Mg2+ binding site [ion binding]; other site 231023017062 G-X-G motif; other site 231023017063 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023017064 active site 231023017065 phosphorylation site [posttranslational modification] 231023017066 intermolecular recognition site; other site 231023017067 dimerization interface [polypeptide binding]; other site 231023017068 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 231023017069 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 231023017070 potential catalytic triad [active] 231023017071 conserved cys residue [active] 231023017072 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 231023017073 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 231023017074 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 231023017075 dimer interface [polypeptide binding]; other site 231023017076 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 231023017077 active site 231023017078 Fe binding site [ion binding]; other site 231023017079 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 231023017080 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 231023017081 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 231023017082 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 231023017083 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 231023017084 Transporter associated domain; Region: CorC_HlyC; smart01091 231023017085 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 231023017086 Protein of unknown function (DUF563); Region: DUF563; pfam04577 231023017087 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 231023017088 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 231023017089 tetrameric interface [polypeptide binding]; other site 231023017090 activator binding site; other site 231023017091 NADP binding site [chemical binding]; other site 231023017092 substrate binding site [chemical binding]; other site 231023017093 catalytic residues [active] 231023017094 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_8; cd07246 231023017095 putative dimer interface [polypeptide binding]; other site 231023017096 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 231023017097 threonine dehydratase; Reviewed; Region: PRK12483 231023017098 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 231023017099 tetramer interface [polypeptide binding]; other site 231023017100 pyridoxal 5'-phosphate binding site [chemical binding]; other site 231023017101 catalytic residue [active] 231023017102 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 231023017103 putative Ile/Val binding site [chemical binding]; other site 231023017104 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 231023017105 putative Ile/Val binding site [chemical binding]; other site 231023017106 Predicted membrane protein [Function unknown]; Region: COG4125 231023017107 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 231023017108 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 231023017109 sensor protein RstB; Provisional; Region: PRK10604 231023017110 HAMP domain; Region: HAMP; pfam00672 231023017111 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 231023017112 dimer interface [polypeptide binding]; other site 231023017113 phosphorylation site [posttranslational modification] 231023017114 Histidine kinase-like ATPases; This family includes several ATP-binding 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 231023017115 ATP binding site [chemical binding]; other site 231023017116 Mg2+ binding site [ion binding]; other site 231023017117 G-X-G motif; other site 231023017118 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 231023017119 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023017120 active site 231023017121 phosphorylation site [posttranslational modification] 231023017122 intermolecular recognition site; other site 231023017123 dimerization interface [polypeptide binding]; other site 231023017124 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 231023017125 DNA binding site [nucleotide binding] 231023017126 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 231023017127 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 231023017128 HlyD family secretion protein; Region: HlyD_3; pfam13437 231023017129 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 231023017130 Protein export membrane protein; Region: SecD_SecF; cl14618 231023017131 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 231023017132 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 231023017133 GTP binding site; other site 231023017134 acyl-CoA synthetase; Provisional; Region: PRK12583 231023017135 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 231023017136 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 231023017137 acyl-activating enzyme (AAE) consensus motif; other site 231023017138 putative AMP binding site [chemical binding]; other site 231023017139 putative active site [active] 231023017140 putative CoA binding site [chemical binding]; other site 231023017141 quinohemoprotein amine dehydrogenase, beta subunit; Region: QH_beta; TIGR03907 231023017142 MutS domain II; Region: MutS_II; pfam05188 231023017143 Quinohemoprotein amine dehydrogenase, gamma subunit; Region: QH-AmDH_gamma; pfam08992 231023017144 quinohemoprotein amine dehydrogenase maturation protein; Region: quino_hemo_SAM; TIGR03906 231023017145 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 231023017146 FeS/SAM binding site; other site 231023017147 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 231023017148 quinohemoprotein amine dehydrogenase, alpha subunit; Region: QH_alpha; TIGR03908 231023017149 Quinohemoprotein amine dehydrogenase A, alpha subunit, haem binding; Region: Dehyd-heme_bind; pfam09098 231023017150 Bacterial Ig-like domain (DUF1927); Region: DUF1927; pfam09099 231023017151 Domain of unknown function (DUF1928); Region: DUF1928; pfam09100 231023017152 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 231023017153 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 231023017154 NAD(P) binding site [chemical binding]; other site 231023017155 catalytic residues [active] 231023017156 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 231023017157 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 231023017158 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 231023017159 active site 231023017160 catalytic residues [active] 231023017161 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 231023017162 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 231023017163 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 231023017164 Walker A/P-loop; other site 231023017165 ATP binding site [chemical binding]; other site 231023017166 Q-loop/lid; other site 231023017167 ABC transporter signature motif; other site 231023017168 Walker B; other site 231023017169 D-loop; other site 231023017170 H-loop/switch region; other site 231023017171 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 231023017172 GAF domain; Region: GAF; pfam01590 231023017173 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 231023017174 putative active site [active] 231023017175 heme pocket [chemical binding]; other site 231023017176 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023017177 ATP binding site [chemical binding]; other site 231023017178 Walker A motif; other site 231023017179 Walker B motif; other site 231023017180 arginine finger; other site 231023017181 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 231023017182 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 231023017183 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 231023017184 curli assembly protein CsgE; Provisional; Region: PRK10386 231023017185 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 231023017186 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 231023017187 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 231023017188 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 231023017189 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 231023017190 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 231023017191 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 231023017192 TPR motif; other site 231023017193 binding surface 231023017194 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 231023017195 Secretin and TonB N terminus short domain; Region: STN; smart00965 231023017196 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 231023017197 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 231023017198 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 231023017199 Type II/IV secretion system protein; Region: T2SE; pfam00437 231023017200 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 231023017201 Walker A motif; other site 231023017202 ATP binding site [chemical binding]; other site 231023017203 Walker B motif; other site 231023017204 Response regulator receiver domain; Region: Response_reg; pfam00072 231023017205 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 231023017206 active site 231023017207 phosphorylation site [posttranslational modification] 231023017208 intermolecular recognition site; other site 231023017209 dimerization interface [polypeptide binding]; other site 231023017210 SurA N-terminal domain; Region: SurA_N_3; cl07813 231023017211 Cytochrome c; Region: Cytochrom_C; pfam00034 231023017212 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 231023017213 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 231023017214 ligand binding site [chemical binding]; other site 231023017215 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 231023017216 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 231023017217 Cu(I) binding site [ion binding]; other site 231023017218 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 231023017219 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 231023017220 Cu(I) binding site [ion binding]; other site 231023017221 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 231023017222 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 231023017223 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 231023017224 FixH; Region: FixH; pfam05751 231023017225 YtkA-like; Region: YtkA; pfam13115 231023017226 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 231023017227 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 231023017228 substrate binding site [chemical binding]; other site 231023017229 oxyanion hole (OAH) forming residues; other site 231023017230 trimer interface [polypeptide binding]; other site 231023017231 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 231023017232 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 231023017233 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 231023017234 active site 231023017235 Transcriptional regulator [Transcription]; Region: LysR; COG0583 231023017236 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 231023017237 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 231023017238 putative effector binding pocket; other site 231023017239 dimerization interface [polypeptide binding]; other site 231023017240 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 231023017241 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 231023017242 Family of unknown function (DUF633); Region: DUF633; pfam04816 231023017243 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 231023017244 homotrimer interaction site [polypeptide binding]; other site 231023017245 putative active site [active] 231023017246 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 231023017247 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 231023017248 Peptidase family U32; Region: Peptidase_U32; pfam01136 231023017249 Collagenase; Region: DUF3656; pfam12392 231023017250 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 231023017251 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 231023017252 Walker A motif; other site 231023017253 ATP binding site [chemical binding]; other site 231023017254 Walker B motif; other site 231023017255 arginine finger; other site 231023017256 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 231023017257 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 231023017258 metal ion-dependent adhesion site (MIDAS); other site 231023017259 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 231023017260 active site 231023017261 DNA binding site [nucleotide binding] 231023017262 Int/Topo IB signature motif; other site 231023017263 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 231023017264 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 231023017265 sequence-specific DNA binding site [nucleotide binding]; other site 231023017266 salt bridge; other site 231023017267 conjugal transfer/type IV secretion protein DotA/TraY; Region: DotA_TraY; TIGR04346 231023017268 PilM; Region: PilM; pfam07419 231023017269 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 231023017270 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 231023017271 active site 231023017272 metal binding site [ion binding]; metal-binding site 231023017273 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cl11986 231023017274 domain I; other site 231023017275 DNA binding groove [nucleotide binding] 231023017276 domain III; other site 231023017277 Bacterial DNA topoisomerase I DNA-binding domain; Region: TOP1Ac; smart00437 231023017278 catalytic site [active] 231023017279 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cl11986 231023017280 domain IV; other site 231023017281 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 231023017282 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 231023017283 N-acetyl-D-glucosamine binding site [chemical binding]; other site 231023017284 catalytic residue [active] 231023017285 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 231023017286 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 231023017287 Peptidase M15; Region: Peptidase_M15_3; cl01194 231023017288 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 231023017289 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 231023017290 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 231023017291 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 231023017292 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 231023017293 active site 231023017294 DNA binding site [nucleotide binding] 231023017295 Int/Topo IB signature motif; other site 231023017296 DNA-sulfur modification-associated; Region: DndB; pfam14072 231023017297 DGQHR domain; Region: DGQHR; TIGR03187 231023017298 SprT-like family; Region: SprT-like; pfam10263 231023017299 SprT homologues; Region: SprT; cl01182 231023017300 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 231023017301 IHF dimer interface [polypeptide binding]; other site 231023017302 IHF - DNA interface [nucleotide binding]; other site 231023017303 recombination associated protein; Reviewed; Region: rdgC; PRK00321 231023017304 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 231023017305 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 231023017306 cofactor binding site; other site 231023017307 substrate interaction site [chemical binding]; other site 231023017308 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 231023017309 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 231023017310 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 231023017311 dimer interface [polypeptide binding]; other site 231023017312 ssDNA binding site [nucleotide binding]; other site 231023017313 tetramer (dimer of dimers) interface [polypeptide binding]; other site 231023017314 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 231023017315 PemK-like protein; Region: PemK; cl00995 231023017316 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 231023017317 Catalytic site [active] 231023017318 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 231023017319 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 231023017320 active site 231023017321 DNA binding site [nucleotide binding] 231023017322 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 231023017323 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 231023017324 replicative DNA helicase; Region: DnaB; TIGR00665 231023017325 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 231023017326 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 231023017327 Walker A motif; other site 231023017328 ATP binding site [chemical binding]; other site 231023017329 Walker B motif; other site 231023017330 DNA binding loops [nucleotide binding] 231023017331 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 231023017332 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 231023017333 ATP binding site [chemical binding]; other site 231023017334 putative Mg++ binding site [ion binding]; other site 231023017335 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 231023017336 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 231023017337 nucleotide binding region [chemical binding]; other site 231023017338 ATP-binding site [chemical binding]; other site 231023017339 The Death Domain Superfamily of protein-protein interaction domains; Region: DD_superfamily; cl14633 231023017340 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 231023017341 DNA topoisomerase III; Provisional; Region: PRK07726 231023017342 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 231023017343 active site 231023017344 putative interdomain interaction site [polypeptide binding]; other site 231023017345 putative metal-binding site [ion binding]; other site 231023017346 putative nucleotide binding site [chemical binding]; other site 231023017347 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cl11986 231023017348 domain I; other site 231023017349 DNA binding groove [nucleotide binding] 231023017350 phosphate binding site [ion binding]; other site 231023017351 domain II; other site 231023017352 domain III; other site 231023017353 nucleotide binding site [chemical binding]; other site 231023017354 catalytic site [active] 231023017355 domain IV; other site 231023017356 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 231023017357 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 231023017358 Methyltransferase domain; Region: Methyltransf_26; pfam13659 231023017359 P-loop containing NTP hydrolase pore-1; Region: AAA_34; pfam13872 231023017360 Helicase_C-like; Region: Helicase_C_4; pfam13871 231023017361 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 231023017362 Part of AAA domain; Region: AAA_19; pfam13245 231023017363 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 231023017364 Family description; Region: UvrD_C_2; pfam13538 231023017365 AAA-like domain; Region: AAA_10; pfam12846 231023017366 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 231023017367 active site 231023017368 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 231023017369 Protein of unknown function (DUF3625); Region: DUF3625; pfam12293 231023017370 Macrophage killing protein with similarity to conjugation protein; Region: IcmL; pfam11393 231023017371 Initiator Replication protein; Region: Rep_3; pfam01051 231023017372 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 231023017373 ParB-like nuclease domain; Region: ParB; smart00470 231023017374 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 231023017375 DNA binding residues [nucleotide binding] 231023017376 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 231023017377 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 231023017378 P-loop; other site 231023017379 Magnesium ion binding site [ion binding]; other site 231023017380 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 231023017381 Magnesium ion binding site [ion binding]; other site 231023017382 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 231023017383 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 231023017384 active site 231023017385 catalytic residues [active] 231023017386 DNA binding site [nucleotide binding] 231023017387 Int/Topo IB signature motif; other site 231023017388 Dot/Icm secretion system ATPase DotB; Region: dot_icm_DotB; TIGR02524 231023017389 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 231023017390 Walker A motif; other site 231023017391 ATP binding site [chemical binding]; other site 231023017392 Walker B motif; other site 231023017393 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 231023017394 putative protofilament interface [polypeptide binding]; other site 231023017395 nucleotide binding site [chemical binding]; other site 231023017396 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 231023017397 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 231023017398 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 231023017399 Pilin accessory protein (PilO); Region: PAP_PilO; pfam06864 231023017400 Pilin accessory protein (PilO); Region: PAP_PilO; pfam06864 231023017401 type IV pilus biogenesis protein PilP; Region: pilP_fam; TIGR03021 231023017402 Type II/IV secretion system protein; Region: T2SE; pfam00437 231023017403 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 231023017404 Walker A motif; other site 231023017405 ATP binding site [chemical binding]; other site 231023017406 Walker B motif; other site 231023017407 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 231023017408 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 231023017409 PilS N terminal; Region: PilS; pfam08805 231023017410 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 231023017411 Walker A motif; other site 231023017412 ATP binding site [chemical binding]; other site 231023017413 Walker B motif; other site 231023017414 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917