-- dump date 20140619_114905 -- class Genbank::misc_feature -- table misc_feature_note -- id note 204773000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 204773000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 204773000003 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 204773000004 Walker A motif; other site 204773000005 ATP binding site [chemical binding]; other site 204773000006 Walker B motif; other site 204773000007 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 204773000008 arginine finger; other site 204773000009 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 204773000010 DnaA box-binding interface [nucleotide binding]; other site 204773000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 204773000012 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 204773000013 putative DNA binding surface [nucleotide binding]; other site 204773000014 dimer interface [polypeptide binding]; other site 204773000015 beta-clamp/clamp loader binding surface; other site 204773000016 beta-clamp/translesion DNA polymerase binding surface; other site 204773000017 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 204773000018 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773000019 ATP binding site [chemical binding]; other site 204773000020 Mg2+ binding site [ion binding]; other site 204773000021 G-X-G motif; other site 204773000022 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 204773000023 anchoring element; other site 204773000024 dimer interface [polypeptide binding]; other site 204773000025 ATP binding site [chemical binding]; other site 204773000026 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 204773000027 active site 204773000028 putative metal-binding site [ion binding]; other site 204773000029 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 204773000030 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 204773000031 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 204773000032 putative active site [active] 204773000033 putative NTP binding site [chemical binding]; other site 204773000034 putative nucleic acid binding site [nucleotide binding]; other site 204773000035 HNH endonuclease; Region: HNH_2; pfam13391 204773000036 Restriction endonuclease; Region: Mrr_cat; pfam04471 204773000037 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 204773000038 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 204773000039 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 204773000040 active site 204773000041 FMN binding site [chemical binding]; other site 204773000042 substrate binding site [chemical binding]; other site 204773000043 homotetramer interface [polypeptide binding]; other site 204773000044 catalytic residue [active] 204773000045 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 204773000046 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 204773000047 dimer interface [polypeptide binding]; other site 204773000048 putative CheW interface [polypeptide binding]; other site 204773000049 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 204773000050 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 204773000051 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 204773000052 active site 204773000053 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 204773000054 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 204773000055 TPR motif; other site 204773000056 binding surface 204773000057 TPR repeat; Region: TPR_11; pfam13414 204773000058 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 204773000059 Jacalin-like lectin domain of griffithsin and related proteins; Region: griffithsin_like; cd09614 204773000060 sugar binding site [chemical binding]; other site 204773000061 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 204773000062 PAS domain; Region: PAS_9; pfam13426 204773000063 putative active site [active] 204773000064 heme pocket [chemical binding]; other site 204773000065 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 204773000066 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 204773000067 DNA binding site [nucleotide binding] 204773000068 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 204773000069 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 204773000070 catalytic residue [active] 204773000071 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 204773000072 catalytic residues [active] 204773000073 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 204773000074 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 204773000075 peroxiredoxin; Region: AhpC; TIGR03137 204773000076 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 204773000077 dimer interface [polypeptide binding]; other site 204773000078 decamer (pentamer of dimers) interface [polypeptide binding]; other site 204773000079 catalytic triad [active] 204773000080 peroxidatic and resolving cysteines [active] 204773000081 Pirin-related protein [General function prediction only]; Region: COG1741 204773000082 Pirin; Region: Pirin; pfam02678 204773000083 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 204773000084 aldolase II superfamily protein; Provisional; Region: PRK07044 204773000085 intersubunit interface [polypeptide binding]; other site 204773000086 active site 204773000087 Zn2+ binding site [ion binding]; other site 204773000088 4-oxalocrotonate tautomerase; Provisional; Region: PRK00745 204773000089 active site 1 [active] 204773000090 dimer interface [polypeptide binding]; other site 204773000091 hexamer interface [polypeptide binding]; other site 204773000092 active site 2 [active] 204773000093 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 204773000094 hypothetical protein; Provisional; Region: PRK09256 204773000095 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 204773000096 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 204773000097 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 204773000098 Arginosuccinate synthase; Region: Arginosuc_synth; cl17227 204773000099 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 204773000100 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 204773000101 N-terminal plug; other site 204773000102 ligand-binding site [chemical binding]; other site 204773000103 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 204773000104 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 204773000105 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 204773000106 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 204773000107 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 204773000108 HlyD family secretion protein; Region: HlyD_3; pfam13437 204773000109 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 204773000110 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 204773000111 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 204773000112 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 204773000113 dimer interface [polypeptide binding]; other site 204773000114 phosphorylation site [posttranslational modification] 204773000115 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773000116 ATP binding site [chemical binding]; other site 204773000117 Mg2+ binding site [ion binding]; other site 204773000118 G-X-G motif; other site 204773000119 CRISPR-associated protein, TIGR03984 family; Region: TIGR03984 204773000120 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 204773000121 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 204773000122 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 204773000123 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 204773000124 putative metal dependent hydrolase; Provisional; Region: PRK11598 204773000125 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 204773000126 Sulfatase; Region: Sulfatase; pfam00884 204773000127 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 204773000128 HAMP domain; Region: HAMP; pfam00672 204773000129 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 204773000130 dimer interface [polypeptide binding]; other site 204773000131 phosphorylation site [posttranslational modification] 204773000132 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773000133 ATP binding site [chemical binding]; other site 204773000134 Mg2+ binding site [ion binding]; other site 204773000135 G-X-G motif; other site 204773000136 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 204773000137 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773000138 active site 204773000139 phosphorylation site [posttranslational modification] 204773000140 intermolecular recognition site; other site 204773000141 dimerization interface [polypeptide binding]; other site 204773000142 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 204773000143 DNA binding site [nucleotide binding] 204773000144 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 204773000145 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 204773000146 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 204773000147 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 204773000148 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 204773000149 Magnesium ion binding site [ion binding]; other site 204773000150 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 204773000151 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 204773000152 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 204773000153 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 204773000154 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 204773000155 N-terminal plug; other site 204773000156 ligand-binding site [chemical binding]; other site 204773000157 Protein of unknown function (DUF461); Region: DUF461; pfam04314 204773000158 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 204773000159 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 204773000160 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_14; cd08355 204773000161 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 204773000162 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 204773000163 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 204773000164 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 204773000165 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 204773000166 CreA protein; Region: CreA; pfam05981 204773000167 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 204773000168 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 204773000169 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 204773000170 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 204773000171 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 204773000172 Proteins containing SET domain [General function prediction only]; Region: COG2940 204773000173 SET domain; Region: SET; pfam00856 204773000174 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 204773000175 Tar ligand binding domain homologue; Region: TarH; pfam02203 204773000176 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 204773000177 dimerization interface [polypeptide binding]; other site 204773000178 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 204773000179 dimer interface [polypeptide binding]; other site 204773000180 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 204773000181 putative CheW interface [polypeptide binding]; other site 204773000182 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 204773000183 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 204773000184 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 204773000185 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 204773000186 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 204773000187 oligomer interface [polypeptide binding]; other site 204773000188 metal binding site [ion binding]; metal-binding site 204773000189 metal binding site [ion binding]; metal-binding site 204773000190 putative Cl binding site [ion binding]; other site 204773000191 basic sphincter; other site 204773000192 hydrophobic gate; other site 204773000193 periplasmic entrance; other site 204773000194 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 204773000195 B12 binding domain; Region: B12-binding; pfam02310 204773000196 B12 binding site [chemical binding]; other site 204773000197 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 204773000198 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 204773000199 FeS/SAM binding site; other site 204773000200 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 204773000201 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 204773000202 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 204773000203 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 204773000204 Sulfate transporter family; Region: Sulfate_transp; pfam00916 204773000205 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 204773000206 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 204773000207 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 204773000208 Transcriptional regulators [Transcription]; Region: GntR; COG1802 204773000209 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204773000210 DNA-binding site [nucleotide binding]; DNA binding site 204773000211 FCD domain; Region: FCD; pfam07729 204773000212 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 204773000213 TAP-like protein; Region: Abhydrolase_4; pfam08386 204773000214 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 204773000215 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 204773000216 active site 204773000217 NAD binding site [chemical binding]; other site 204773000218 metal binding site [ion binding]; metal-binding site 204773000219 benzoate transport; Region: 2A0115; TIGR00895 204773000220 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 204773000221 putative substrate translocation pore; other site 204773000222 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 204773000223 Transcriptional regulators [Transcription]; Region: GntR; COG1802 204773000224 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204773000225 DNA-binding site [nucleotide binding]; DNA binding site 204773000226 FCD domain; Region: FCD; pfam07729 204773000227 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 204773000228 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 204773000229 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 204773000230 active site 204773000231 HIGH motif; other site 204773000232 KMSK motif region; other site 204773000233 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 204773000234 tRNA binding surface [nucleotide binding]; other site 204773000235 anticodon binding site; other site 204773000236 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 204773000237 Sporulation related domain; Region: SPOR; pfam05036 204773000238 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 204773000239 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 204773000240 catalytic residues [active] 204773000241 hinge region; other site 204773000242 alpha helical domain; other site 204773000243 short chain dehydrogenase; Provisional; Region: PRK07024 204773000244 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 204773000245 NAD(P) binding site [chemical binding]; other site 204773000246 active site 204773000247 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 204773000248 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 204773000249 hypothetical protein; Provisional; Region: PRK01842 204773000250 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 204773000251 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 204773000252 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 204773000253 inhibitor-cofactor binding pocket; inhibition site 204773000254 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204773000255 catalytic residue [active] 204773000256 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 204773000257 biotin synthase; Region: bioB; TIGR00433 204773000258 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 204773000259 FeS/SAM binding site; other site 204773000260 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 204773000261 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 204773000262 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 204773000263 active site 204773000264 metal binding site [ion binding]; metal-binding site 204773000265 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 204773000266 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 204773000267 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 204773000268 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 204773000269 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 204773000270 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 204773000271 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 204773000272 Coenzyme A binding pocket [chemical binding]; other site 204773000273 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 204773000274 hypothetical protein; Provisional; Region: PRK02237 204773000275 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 204773000276 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 204773000277 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 204773000278 AlkA N-terminal domain; Region: AlkA_N; pfam06029 204773000279 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 204773000280 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 204773000281 minor groove reading motif; other site 204773000282 helix-hairpin-helix signature motif; other site 204773000283 substrate binding pocket [chemical binding]; other site 204773000284 active site 204773000285 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 204773000286 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 204773000287 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 204773000288 DNA binding site [nucleotide binding] 204773000289 active site 204773000290 Tic20-like protein; Region: Tic20; pfam09685 204773000291 Uncharacterized conserved protein [Function unknown]; Region: COG1432 204773000292 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 204773000293 putative metal binding site [ion binding]; other site 204773000294 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 204773000295 DNA topoisomerase III; Validated; Region: PRK08173 204773000296 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 204773000297 active site 204773000298 putative interdomain interaction site [polypeptide binding]; other site 204773000299 putative metal-binding site [ion binding]; other site 204773000300 putative nucleotide binding site [chemical binding]; other site 204773000301 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 204773000302 domain I; other site 204773000303 DNA binding groove [nucleotide binding] 204773000304 phosphate binding site [ion binding]; other site 204773000305 domain II; other site 204773000306 domain III; other site 204773000307 nucleotide binding site [chemical binding]; other site 204773000308 catalytic site [active] 204773000309 domain IV; other site 204773000310 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 204773000311 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 204773000312 Protein of unknown function (DUF494); Region: DUF494; cl01103 204773000313 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 204773000314 DNA protecting protein DprA; Region: dprA; TIGR00732 204773000315 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 204773000316 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 204773000317 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 204773000318 active site 204773000319 catalytic residues [active] 204773000320 metal binding site [ion binding]; metal-binding site 204773000321 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 204773000322 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 204773000323 putative active site [active] 204773000324 substrate binding site [chemical binding]; other site 204773000325 putative cosubstrate binding site; other site 204773000326 catalytic site [active] 204773000327 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 204773000328 substrate binding site [chemical binding]; other site 204773000329 Predicted membrane protein [Function unknown]; Region: COG3650 204773000330 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 204773000331 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 204773000332 putative DNA binding site [nucleotide binding]; other site 204773000333 putative Zn2+ binding site [ion binding]; other site 204773000334 AsnC family; Region: AsnC_trans_reg; pfam01037 204773000335 ornithine--oxo-acid transaminase; Reviewed; Region: rocD; PRK00854 204773000336 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 204773000337 inhibitor-cofactor binding pocket; inhibition site 204773000338 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204773000339 catalytic residue [active] 204773000340 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 204773000341 Amidinotransferase; Region: Amidinotransf; cl12043 204773000342 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 204773000343 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 204773000344 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 204773000345 substrate binding pocket [chemical binding]; other site 204773000346 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 204773000347 B12 binding site [chemical binding]; other site 204773000348 cobalt ligand [ion binding]; other site 204773000349 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 204773000350 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 204773000351 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 204773000352 putative active site [active] 204773000353 putative dimer interface [polypeptide binding]; other site 204773000354 Putative methyltransferase; Region: Methyltransf_4; cl17290 204773000355 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 204773000356 Response regulator receiver domain; Region: Response_reg; pfam00072 204773000357 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773000358 active site 204773000359 phosphorylation site [posttranslational modification] 204773000360 intermolecular recognition site; other site 204773000361 dimerization interface [polypeptide binding]; other site 204773000362 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 204773000363 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 204773000364 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 204773000365 dimerization interface [polypeptide binding]; other site 204773000366 PAS domain; Region: PAS; smart00091 204773000367 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 204773000368 dimer interface [polypeptide binding]; other site 204773000369 phosphorylation site [posttranslational modification] 204773000370 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773000371 ATP binding site [chemical binding]; other site 204773000372 Mg2+ binding site [ion binding]; other site 204773000373 G-X-G motif; other site 204773000374 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 204773000375 16S rRNA methyltransferase B; Provisional; Region: PRK10901 204773000376 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 204773000377 S-adenosylmethionine binding site [chemical binding]; other site 204773000378 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 204773000379 flap endonuclease-like protein; Provisional; Region: PRK09482 204773000380 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 204773000381 active site 204773000382 metal binding site 1 [ion binding]; metal-binding site 204773000383 putative 5' ssDNA interaction site; other site 204773000384 metal binding site 3; metal-binding site 204773000385 metal binding site 2 [ion binding]; metal-binding site 204773000386 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 204773000387 putative DNA binding site [nucleotide binding]; other site 204773000388 putative metal binding site [ion binding]; other site 204773000389 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 204773000390 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 204773000391 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 204773000392 Walker A motif; other site 204773000393 ATP binding site [chemical binding]; other site 204773000394 Walker B motif; other site 204773000395 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 204773000396 Membrane fusogenic activity; Region: BMFP; pfam04380 204773000397 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; pfam09694 204773000398 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 204773000399 Nitrogen regulatory protein P-II; Region: P-II; smart00938 204773000400 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 204773000401 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 204773000402 Glutamate-cysteine ligase; Region: GshA; pfam08886 204773000403 glutathione synthetase; Provisional; Region: PRK05246 204773000404 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 204773000405 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 204773000406 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 204773000407 active pocket/dimerization site; other site 204773000408 active site 204773000409 phosphorylation site [posttranslational modification] 204773000410 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 204773000411 dimerization domain swap beta strand [polypeptide binding]; other site 204773000412 regulatory protein interface [polypeptide binding]; other site 204773000413 active site 204773000414 regulatory phosphorylation site [posttranslational modification]; other site 204773000415 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 204773000416 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 204773000417 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 204773000418 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 204773000419 Chromate transporter; Region: Chromate_transp; pfam02417 204773000420 Chromate transporter; Region: Chromate_transp; pfam02417 204773000421 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 204773000422 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 204773000423 Methyltransferase domain; Region: Methyltransf_23; pfam13489 204773000424 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 204773000425 S-adenosylmethionine binding site [chemical binding]; other site 204773000426 muropeptide transporter; Reviewed; Region: ampG; PRK11902 204773000427 AmpG-like permease; Region: 2A0125; TIGR00901 204773000428 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 204773000429 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773000430 active site 204773000431 phosphorylation site [posttranslational modification] 204773000432 intermolecular recognition site; other site 204773000433 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 204773000434 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 204773000435 putative RNA binding site [nucleotide binding]; other site 204773000436 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 204773000437 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 204773000438 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 204773000439 putative substrate translocation pore; other site 204773000440 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 204773000441 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 204773000442 putative active site [active] 204773000443 putative catalytic site [active] 204773000444 putative DNA binding site [nucleotide binding]; other site 204773000445 putative phosphate binding site [ion binding]; other site 204773000446 metal binding site A [ion binding]; metal-binding site 204773000447 putative AP binding site [nucleotide binding]; other site 204773000448 putative metal binding site B [ion binding]; other site 204773000449 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 204773000450 active site 204773000451 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 204773000452 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 204773000453 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 204773000454 GatB domain; Region: GatB_Yqey; smart00845 204773000455 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 204773000456 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 204773000457 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 204773000458 rod shape-determining protein MreB; Provisional; Region: PRK13927 204773000459 MreB and similar proteins; Region: MreB_like; cd10225 204773000460 nucleotide binding site [chemical binding]; other site 204773000461 Mg binding site [ion binding]; other site 204773000462 putative protofilament interaction site [polypeptide binding]; other site 204773000463 RodZ interaction site [polypeptide binding]; other site 204773000464 rod shape-determining protein MreC; Provisional; Region: PRK13922 204773000465 rod shape-determining protein MreC; Region: MreC; pfam04085 204773000466 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 204773000467 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 204773000468 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 204773000469 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 204773000470 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 204773000471 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 204773000472 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 204773000473 Sporulation related domain; Region: SPOR; pfam05036 204773000474 Predicted methyltransferases [General function prediction only]; Region: COG0313 204773000475 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 204773000476 putative SAM binding site [chemical binding]; other site 204773000477 putative homodimer interface [polypeptide binding]; other site 204773000478 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 204773000479 hypothetical protein; Provisional; Region: PRK14673 204773000480 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 204773000481 dimer interface [polypeptide binding]; other site 204773000482 active site 204773000483 outer membrane lipoprotein; Provisional; Region: PRK11023 204773000484 BON domain; Region: BON; pfam04972 204773000485 BON domain; Region: BON; pfam04972 204773000486 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 204773000487 Peptidase family M48; Region: Peptidase_M48; cl12018 204773000488 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 204773000489 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 204773000490 catalytic residues [active] 204773000491 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 204773000492 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 204773000493 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 204773000494 peptide chain release factor 1; Validated; Region: prfA; PRK00591 204773000495 This domain is found in peptide chain release factors; Region: PCRF; smart00937 204773000496 RF-1 domain; Region: RF-1; pfam00472 204773000497 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 204773000498 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 204773000499 tRNA; other site 204773000500 putative tRNA binding site [nucleotide binding]; other site 204773000501 putative NADP binding site [chemical binding]; other site 204773000502 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 204773000503 CHASE2 domain; Region: CHASE2; pfam05226 204773000504 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 204773000505 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 204773000506 PAS domain; Region: PAS; smart00091 204773000507 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773000508 ATP binding site [chemical binding]; other site 204773000509 Mg2+ binding site [ion binding]; other site 204773000510 G-X-G motif; other site 204773000511 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 204773000512 FecR protein; Region: FecR; pfam04773 204773000513 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 204773000514 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773000515 active site 204773000516 phosphorylation site [posttranslational modification] 204773000517 intermolecular recognition site; other site 204773000518 dimerization interface [polypeptide binding]; other site 204773000519 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 204773000520 DNA binding site [nucleotide binding] 204773000521 psiF repeat; Region: PsiF_repeat; pfam07769 204773000522 psiF repeat; Region: PsiF_repeat; pfam07769 204773000523 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 204773000524 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 204773000525 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 204773000526 dimerization domain [polypeptide binding]; other site 204773000527 dimer interface [polypeptide binding]; other site 204773000528 catalytic residues [active] 204773000529 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 204773000530 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 204773000531 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 204773000532 protein binding site [polypeptide binding]; other site 204773000533 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 204773000534 active site 204773000535 substrate (anthranilate) binding pocket [chemical binding]; other site 204773000536 product (indole) binding pocket [chemical binding]; other site 204773000537 ribulose/triose binding site [chemical binding]; other site 204773000538 phosphate binding site [ion binding]; other site 204773000539 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 204773000540 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 204773000541 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 204773000542 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 204773000543 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 204773000544 glutamine binding [chemical binding]; other site 204773000545 catalytic triad [active] 204773000546 anthranilate synthase component I; Provisional; Region: PRK13565 204773000547 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 204773000548 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 204773000549 2-phosphoglycolate phosphatase, prokaryotic; Region: PGP_bact; TIGR01449 204773000550 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 204773000551 motif II; other site 204773000552 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 204773000553 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 204773000554 substrate binding site [chemical binding]; other site 204773000555 hexamer interface [polypeptide binding]; other site 204773000556 metal binding site [ion binding]; metal-binding site 204773000557 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 204773000558 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 204773000559 MltA specific insert domain; Region: MltA; smart00925 204773000560 3D domain; Region: 3D; pfam06725 204773000561 enoyl-CoA hydratase; Provisional; Region: PRK05862 204773000562 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 204773000563 substrate binding site [chemical binding]; other site 204773000564 oxyanion hole (OAH) forming residues; other site 204773000565 trimer interface [polypeptide binding]; other site 204773000566 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 204773000567 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 204773000568 Ligand Binding Site [chemical binding]; other site 204773000569 glycerol kinase; Provisional; Region: glpK; PRK00047 204773000570 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 204773000571 N- and C-terminal domain interface [polypeptide binding]; other site 204773000572 active site 204773000573 MgATP binding site [chemical binding]; other site 204773000574 catalytic site [active] 204773000575 metal binding site [ion binding]; metal-binding site 204773000576 glycerol binding site [chemical binding]; other site 204773000577 homotetramer interface [polypeptide binding]; other site 204773000578 homodimer interface [polypeptide binding]; other site 204773000579 FBP binding site [chemical binding]; other site 204773000580 protein IIAGlc interface [polypeptide binding]; other site 204773000581 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 204773000582 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 204773000583 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 204773000584 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 204773000585 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 204773000586 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 204773000587 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 204773000588 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 204773000589 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 204773000590 metal binding site [ion binding]; metal-binding site 204773000591 putative dimer interface [polypeptide binding]; other site 204773000592 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 204773000593 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 204773000594 acyl-activating enzyme (AAE) consensus motif; other site 204773000595 putative AMP binding site [chemical binding]; other site 204773000596 putative active site [active] 204773000597 putative CoA binding site [chemical binding]; other site 204773000598 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 204773000599 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 204773000600 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 204773000601 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204773000602 Walker A/P-loop; other site 204773000603 ATP binding site [chemical binding]; other site 204773000604 Q-loop/lid; other site 204773000605 ABC transporter signature motif; other site 204773000606 Walker B; other site 204773000607 D-loop; other site 204773000608 H-loop/switch region; other site 204773000609 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 204773000610 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 204773000611 substrate binding pocket [chemical binding]; other site 204773000612 membrane-bound complex binding site; other site 204773000613 hinge residues; other site 204773000614 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 204773000615 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 204773000616 dimer interface [polypeptide binding]; other site 204773000617 conserved gate region; other site 204773000618 putative PBP binding loops; other site 204773000619 ABC-ATPase subunit interface; other site 204773000620 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 204773000621 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 204773000622 dimer interface [polypeptide binding]; other site 204773000623 conserved gate region; other site 204773000624 putative PBP binding loops; other site 204773000625 ABC-ATPase subunit interface; other site 204773000626 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 204773000627 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 204773000628 Walker A/P-loop; other site 204773000629 ATP binding site [chemical binding]; other site 204773000630 Q-loop/lid; other site 204773000631 ABC transporter signature motif; other site 204773000632 Walker B; other site 204773000633 D-loop; other site 204773000634 H-loop/switch region; other site 204773000635 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 204773000636 active site 204773000637 substrate binding pocket [chemical binding]; other site 204773000638 dimer interface [polypeptide binding]; other site 204773000639 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 204773000640 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 204773000641 catalytic triad [active] 204773000642 putative active site [active] 204773000643 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 204773000644 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 204773000645 Autotransporter beta-domain; Region: Autotransporter; pfam03797 204773000646 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 204773000647 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 204773000648 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 204773000649 eyelet of channel; other site 204773000650 trimer interface [polypeptide binding]; other site 204773000651 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 204773000652 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 204773000653 trimer interface [polypeptide binding]; other site 204773000654 eyelet of channel; other site 204773000655 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 204773000656 diiron binding motif [ion binding]; other site 204773000657 OsmC-like protein; Region: OsmC; cl00767 204773000658 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 204773000659 23S rRNA interface [nucleotide binding]; other site 204773000660 L3 interface [polypeptide binding]; other site 204773000661 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 204773000662 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 204773000663 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 204773000664 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 204773000665 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 204773000666 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 204773000667 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 204773000668 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 204773000669 putative peptidase; Provisional; Region: PRK11649 204773000670 Peptidase family M23; Region: Peptidase_M23; pfam01551 204773000671 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 204773000672 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 204773000673 active site 204773000674 HIGH motif; other site 204773000675 dimer interface [polypeptide binding]; other site 204773000676 KMSKS motif; other site 204773000677 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 204773000678 RNA binding surface [nucleotide binding]; other site 204773000679 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 204773000680 putative active site [active] 204773000681 dimerization interface [polypeptide binding]; other site 204773000682 putative tRNAtyr binding site [nucleotide binding]; other site 204773000683 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 204773000684 substrate binding site [chemical binding]; other site 204773000685 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 204773000686 catalytic core [active] 204773000687 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 204773000688 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 204773000689 FMN binding site [chemical binding]; other site 204773000690 active site 204773000691 catalytic residues [active] 204773000692 substrate binding site [chemical binding]; other site 204773000693 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 204773000694 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 204773000695 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 204773000696 purine monophosphate binding site [chemical binding]; other site 204773000697 dimer interface [polypeptide binding]; other site 204773000698 putative catalytic residues [active] 204773000699 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 204773000700 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 204773000701 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 204773000702 active site 204773000703 putative DNA-binding cleft [nucleotide binding]; other site 204773000704 dimer interface [polypeptide binding]; other site 204773000705 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 204773000706 RuvA N terminal domain; Region: RuvA_N; pfam01330 204773000707 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 204773000708 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 204773000709 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 204773000710 Walker A motif; other site 204773000711 ATP binding site [chemical binding]; other site 204773000712 Walker B motif; other site 204773000713 arginine finger; other site 204773000714 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 204773000715 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 204773000716 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 204773000717 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 204773000718 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 204773000719 active site 204773000720 HIGH motif; other site 204773000721 nucleotide binding site [chemical binding]; other site 204773000722 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 204773000723 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 204773000724 active site 204773000725 KMSKS motif; other site 204773000726 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 204773000727 tRNA binding surface [nucleotide binding]; other site 204773000728 anticodon binding site; other site 204773000729 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 204773000730 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 204773000731 thiS-thiF/thiG interaction site; other site 204773000732 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 204773000733 ThiS interaction site; other site 204773000734 putative active site [active] 204773000735 tetramer interface [polypeptide binding]; other site 204773000736 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 204773000737 thiamine phosphate binding site [chemical binding]; other site 204773000738 active site 204773000739 pyrophosphate binding site [ion binding]; other site 204773000740 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 204773000741 Part of AAA domain; Region: AAA_19; pfam13245 204773000742 Family description; Region: UvrD_C_2; pfam13538 204773000743 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 204773000744 putative active site [active] 204773000745 ATP binding site [chemical binding]; other site 204773000746 putative substrate binding site [chemical binding]; other site 204773000747 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 204773000748 DNA polymerase I; Provisional; Region: PRK05755 204773000749 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 204773000750 active site 204773000751 metal binding site 1 [ion binding]; metal-binding site 204773000752 putative 5' ssDNA interaction site; other site 204773000753 metal binding site 3; metal-binding site 204773000754 metal binding site 2 [ion binding]; metal-binding site 204773000755 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 204773000756 putative DNA binding site [nucleotide binding]; other site 204773000757 putative metal binding site [ion binding]; other site 204773000758 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 204773000759 active site 204773000760 catalytic site [active] 204773000761 substrate binding site [chemical binding]; other site 204773000762 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 204773000763 active site 204773000764 DNA binding site [nucleotide binding] 204773000765 catalytic site [active] 204773000766 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 204773000767 ZIP Zinc transporter; Region: Zip; pfam02535 204773000768 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 204773000769 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 204773000770 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 204773000771 active site residue [active] 204773000772 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 204773000773 active site residue [active] 204773000774 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 204773000775 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 204773000776 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 204773000777 [2Fe-2S] cluster binding site [ion binding]; other site 204773000778 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 204773000779 alpha subunit interface [polypeptide binding]; other site 204773000780 active site 204773000781 substrate binding site [chemical binding]; other site 204773000782 Fe binding site [ion binding]; other site 204773000783 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 204773000784 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 204773000785 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 204773000786 substrate binding pocket [chemical binding]; other site 204773000787 chain length determination region; other site 204773000788 substrate-Mg2+ binding site; other site 204773000789 catalytic residues [active] 204773000790 aspartate-rich region 1; other site 204773000791 active site lid residues [active] 204773000792 aspartate-rich region 2; other site 204773000793 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 204773000794 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 204773000795 TPP-binding site; other site 204773000796 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 204773000797 PYR/PP interface [polypeptide binding]; other site 204773000798 dimer interface [polypeptide binding]; other site 204773000799 TPP binding site [chemical binding]; other site 204773000800 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 204773000801 putative GTP cyclohydrolase; Provisional; Region: PRK13674 204773000802 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 204773000803 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 204773000804 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204773000805 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 204773000806 dimerization interface [polypeptide binding]; other site 204773000807 substrate binding pocket [chemical binding]; other site 204773000808 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 204773000809 FAD binding domain; Region: FAD_binding_4; pfam01565 204773000810 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 204773000811 FAD binding domain; Region: FAD_binding_4; pfam01565 204773000812 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 204773000813 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 204773000814 Cysteine-rich domain; Region: CCG; pfam02754 204773000815 Cysteine-rich domain; Region: CCG; pfam02754 204773000816 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 204773000817 catalytic residues [active] 204773000818 dimer interface [polypeptide binding]; other site 204773000819 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 204773000820 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 204773000821 Walker A motif; other site 204773000822 ATP binding site [chemical binding]; other site 204773000823 Walker B motif; other site 204773000824 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 204773000825 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 204773000826 Walker A motif; other site 204773000827 ATP binding site [chemical binding]; other site 204773000828 Walker B motif; other site 204773000829 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 204773000830 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 204773000831 catalytic residue [active] 204773000832 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 204773000833 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 204773000834 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 204773000835 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 204773000836 PAS fold; Region: PAS_3; pfam08447 204773000837 putative active site [active] 204773000838 heme pocket [chemical binding]; other site 204773000839 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 204773000840 putative active site [active] 204773000841 heme pocket [chemical binding]; other site 204773000842 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773000843 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773000844 metal binding site [ion binding]; metal-binding site 204773000845 active site 204773000846 I-site; other site 204773000847 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 204773000848 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 204773000849 dimer interface [polypeptide binding]; other site 204773000850 phosphorylation site [posttranslational modification] 204773000851 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773000852 ATP binding site [chemical binding]; other site 204773000853 Mg2+ binding site [ion binding]; other site 204773000854 G-X-G motif; other site 204773000855 Response regulator receiver domain; Region: Response_reg; pfam00072 204773000856 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773000857 active site 204773000858 phosphorylation site [posttranslational modification] 204773000859 intermolecular recognition site; other site 204773000860 dimerization interface [polypeptide binding]; other site 204773000861 circadian clock protein KaiC; Reviewed; Region: PRK09302 204773000862 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 204773000863 Walker A motif; other site 204773000864 ATP binding site [chemical binding]; other site 204773000865 Walker B motif; other site 204773000866 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 204773000867 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 204773000868 Walker A motif; other site 204773000869 Walker A motif; other site 204773000870 ATP binding site [chemical binding]; other site 204773000871 Walker B motif; other site 204773000872 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 204773000873 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 204773000874 NAD(P) binding site [chemical binding]; other site 204773000875 active site 204773000876 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 204773000877 UbiA prenyltransferase family; Region: UbiA; pfam01040 204773000878 Transcriptional regulator [Transcription]; Region: LysR; COG0583 204773000879 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204773000880 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 204773000881 dimerization interface [polypeptide binding]; other site 204773000882 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 204773000883 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 204773000884 generic binding surface II; other site 204773000885 ssDNA binding site; other site 204773000886 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 204773000887 ATP binding site [chemical binding]; other site 204773000888 putative Mg++ binding site [ion binding]; other site 204773000889 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 204773000890 nucleotide binding region [chemical binding]; other site 204773000891 ATP-binding site [chemical binding]; other site 204773000892 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 204773000893 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 204773000894 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 204773000895 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 204773000896 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 204773000897 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 204773000898 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 204773000899 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 204773000900 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 204773000901 Protein export membrane protein; Region: SecD_SecF; pfam02355 204773000902 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 204773000903 MarR family; Region: MarR_2; pfam12802 204773000904 Uncharacterized conserved protein [Function unknown]; Region: COG2353 204773000905 YceI-like domain; Region: YceI; smart00867 204773000906 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 204773000907 adenylosuccinate lyase; Provisional; Region: PRK09285 204773000908 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 204773000909 tetramer interface [polypeptide binding]; other site 204773000910 active site 204773000911 putative glutathione S-transferase; Provisional; Region: PRK10357 204773000912 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 204773000913 putative C-terminal domain interface [polypeptide binding]; other site 204773000914 putative GSH binding site (G-site) [chemical binding]; other site 204773000915 putative dimer interface [polypeptide binding]; other site 204773000916 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 204773000917 dimer interface [polypeptide binding]; other site 204773000918 N-terminal domain interface [polypeptide binding]; other site 204773000919 putative substrate binding pocket (H-site) [chemical binding]; other site 204773000920 putative transposase OrfB; Reviewed; Region: PHA02517 204773000921 HTH-like domain; Region: HTH_21; pfam13276 204773000922 Integrase core domain; Region: rve; pfam00665 204773000923 Integrase core domain; Region: rve_2; pfam13333 204773000924 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 204773000925 Helix-turn-helix domain; Region: HTH_28; pfam13518 204773000926 Helix-turn-helix domain; Region: HTH_28; pfam13518 204773000927 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 204773000928 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 204773000929 heme binding site [chemical binding]; other site 204773000930 ferroxidase pore; other site 204773000931 ferroxidase diiron center [ion binding]; other site 204773000932 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 204773000933 TolR protein; Region: tolR; TIGR02801 204773000934 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 204773000935 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 204773000936 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 204773000937 Hemin uptake protein hemP; Region: hemP; pfam10636 204773000938 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 204773000939 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 204773000940 active site 204773000941 FMN binding site [chemical binding]; other site 204773000942 substrate binding site [chemical binding]; other site 204773000943 3Fe-4S cluster binding site [ion binding]; other site 204773000944 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 204773000945 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 204773000946 Ligand Binding Site [chemical binding]; other site 204773000947 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 204773000948 nudix motif; other site 204773000949 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 204773000950 tetramerization interface [polypeptide binding]; other site 204773000951 active site 204773000952 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 204773000953 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 204773000954 ligand binding site [chemical binding]; other site 204773000955 homodimer interface [polypeptide binding]; other site 204773000956 NAD(P) binding site [chemical binding]; other site 204773000957 trimer interface B [polypeptide binding]; other site 204773000958 trimer interface A [polypeptide binding]; other site 204773000959 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 204773000960 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 204773000961 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 204773000962 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204773000963 transcriptional activator TtdR; Provisional; Region: PRK09801 204773000964 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 204773000965 putative effector binding pocket; other site 204773000966 dimerization interface [polypeptide binding]; other site 204773000967 glyoxylate carboligase; Provisional; Region: PRK11269 204773000968 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 204773000969 PYR/PP interface [polypeptide binding]; other site 204773000970 dimer interface [polypeptide binding]; other site 204773000971 TPP binding site [chemical binding]; other site 204773000972 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 204773000973 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 204773000974 TPP-binding site [chemical binding]; other site 204773000975 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 204773000976 tartronate semialdehyde reductase; Provisional; Region: PRK15059 204773000977 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 204773000978 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 204773000979 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 204773000980 MOFRL family; Region: MOFRL; pfam05161 204773000981 pyruvate kinase; Provisional; Region: PRK06247 204773000982 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 204773000983 domain interfaces; other site 204773000984 active site 204773000985 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 204773000986 ThiC-associated domain; Region: ThiC-associated; pfam13667 204773000987 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 204773000988 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 204773000989 thiS-thiF/thiG interaction site; other site 204773000990 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 204773000991 ThiS interaction site; other site 204773000992 putative active site [active] 204773000993 tetramer interface [polypeptide binding]; other site 204773000994 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 204773000995 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 204773000996 NAD(P) binding site [chemical binding]; other site 204773000997 Transcriptional regulator [Transcription]; Region: LysR; COG0583 204773000998 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204773000999 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 204773001000 putative dimerization interface [polypeptide binding]; other site 204773001001 haloacid dehalogenase-like hydrolase family protein; Region: PLN02779 204773001002 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 204773001003 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 204773001004 CoA-ligase; Region: Ligase_CoA; pfam00549 204773001005 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 204773001006 CoA binding domain; Region: CoA_binding; smart00881 204773001007 CoA-ligase; Region: Ligase_CoA; pfam00549 204773001008 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 204773001009 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 204773001010 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 204773001011 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 204773001012 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 204773001013 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 204773001014 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 204773001015 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 204773001016 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 204773001017 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 204773001018 BON domain; Region: BON; pfam04972 204773001019 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 204773001020 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 204773001021 ligand binding site [chemical binding]; other site 204773001022 flexible hinge region; other site 204773001023 putative oxalyl-CoA decarboxylase; Validated; Region: PRK09259 204773001024 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 204773001025 PYR/PP interface [polypeptide binding]; other site 204773001026 dimer interface [polypeptide binding]; other site 204773001027 TPP binding site [chemical binding]; other site 204773001028 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 204773001029 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 204773001030 TPP-binding site; other site 204773001031 dimer interface [polypeptide binding]; other site 204773001032 formyl-coenzyme A transferase; Provisional; Region: PRK05398 204773001033 CoA-transferase family III; Region: CoA_transf_3; pfam02515 204773001034 formyl-coenzyme A transferase; Provisional; Region: PRK05398 204773001035 CoA-transferase family III; Region: CoA_transf_3; pfam02515 204773001036 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 204773001037 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 204773001038 putative ligand binding site [chemical binding]; other site 204773001039 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E family, Tungsten-containing formate dehydrogenase (W-FDH) beta subunit; composed of proteins similar to the W-FDH beta subunit of Methylobacterium extorquens. W-FDH...; Region: TRX_Fd_NuoE_W_FDH_beta; cd03082 204773001040 putative dimer interface [polypeptide binding]; other site 204773001041 [2Fe-2S] cluster binding site [ion binding]; other site 204773001042 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 204773001043 SLBB domain; Region: SLBB; pfam10531 204773001044 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 204773001045 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 204773001046 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 204773001047 catalytic loop [active] 204773001048 iron binding site [ion binding]; other site 204773001049 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 204773001050 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 204773001051 [4Fe-4S] binding site [ion binding]; other site 204773001052 molybdopterin cofactor binding site; other site 204773001053 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 204773001054 molybdopterin cofactor binding site; other site 204773001055 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 204773001056 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 204773001057 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 204773001058 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 204773001059 hypothetical protein; Provisional; Region: PRK06996 204773001060 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 204773001061 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 204773001062 proline aminopeptidase P II; Provisional; Region: PRK10879 204773001063 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 204773001064 active site 204773001065 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 204773001066 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 204773001067 Substrate binding site; other site 204773001068 metal-binding site 204773001069 Phosphotransferase enzyme family; Region: APH; pfam01636 204773001070 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 204773001071 active site 204773001072 ATP binding site [chemical binding]; other site 204773001073 substrate binding site [chemical binding]; other site 204773001074 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 204773001075 Organic solvent tolerance protein; Region: OstA_C; pfam04453 204773001076 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 204773001077 SurA N-terminal domain; Region: SurA_N; pfam09312 204773001078 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 204773001079 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 204773001080 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK01909 204773001081 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 204773001082 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 204773001083 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 204773001084 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 204773001085 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 204773001086 dimer interface [polypeptide binding]; other site 204773001087 active site 204773001088 metal binding site [ion binding]; metal-binding site 204773001089 glutathione binding site [chemical binding]; other site 204773001090 Protein of unknown function DUF45; Region: DUF45; pfam01863 204773001091 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 204773001092 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 204773001093 putative acyl-acceptor binding pocket; other site 204773001094 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 204773001095 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 204773001096 active site 204773001097 motif I; other site 204773001098 motif II; other site 204773001099 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 204773001100 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 204773001101 dimer interface [polypeptide binding]; other site 204773001102 motif 1; other site 204773001103 active site 204773001104 motif 2; other site 204773001105 motif 3; other site 204773001106 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 204773001107 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 204773001108 putative active site [active] 204773001109 catalytic triad [active] 204773001110 putative dimer interface [polypeptide binding]; other site 204773001111 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 204773001112 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 204773001113 Transporter associated domain; Region: CorC_HlyC; smart01091 204773001114 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 204773001115 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 204773001116 PhoH-like protein; Region: PhoH; pfam02562 204773001117 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 204773001118 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 204773001119 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 204773001120 FeS/SAM binding site; other site 204773001121 TRAM domain; Region: TRAM; pfam01938 204773001122 glutamate dehydrogenase; Provisional; Region: PRK09414 204773001123 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 204773001124 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 204773001125 NAD(P) binding site [chemical binding]; other site 204773001126 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 204773001127 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 204773001128 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 204773001129 Walker A/P-loop; other site 204773001130 ATP binding site [chemical binding]; other site 204773001131 Q-loop/lid; other site 204773001132 ABC transporter signature motif; other site 204773001133 Walker B; other site 204773001134 D-loop; other site 204773001135 H-loop/switch region; other site 204773001136 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 204773001137 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 204773001138 Walker A/P-loop; other site 204773001139 ATP binding site [chemical binding]; other site 204773001140 Q-loop/lid; other site 204773001141 ABC transporter signature motif; other site 204773001142 Walker B; other site 204773001143 D-loop; other site 204773001144 H-loop/switch region; other site 204773001145 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 204773001146 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 204773001147 TM-ABC transporter signature motif; other site 204773001148 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 204773001149 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 204773001150 TM-ABC transporter signature motif; other site 204773001151 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 204773001152 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 204773001153 putative ligand binding site [chemical binding]; other site 204773001154 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 204773001155 Ligand Binding Site [chemical binding]; other site 204773001156 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 204773001157 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 204773001158 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 204773001159 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 204773001160 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 204773001161 dimer interface [polypeptide binding]; other site 204773001162 phosphorylation site [posttranslational modification] 204773001163 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773001164 ATP binding site [chemical binding]; other site 204773001165 Mg2+ binding site [ion binding]; other site 204773001166 G-X-G motif; other site 204773001167 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 204773001168 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773001169 active site 204773001170 phosphorylation site [posttranslational modification] 204773001171 intermolecular recognition site; other site 204773001172 dimerization interface [polypeptide binding]; other site 204773001173 HDOD domain; Region: HDOD; pfam08668 204773001174 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773001175 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773001176 metal binding site [ion binding]; metal-binding site 204773001177 active site 204773001178 I-site; other site 204773001179 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 204773001180 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 204773001181 active site 204773001182 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 204773001183 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 204773001184 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 204773001185 active site 204773001186 DNA binding site [nucleotide binding] 204773001187 Int/Topo IB signature motif; other site 204773001188 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 204773001189 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; cd02019 204773001190 active site 204773001191 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 204773001192 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773001193 ATP binding site [chemical binding]; other site 204773001194 Mg2+ binding site [ion binding]; other site 204773001195 G-X-G motif; other site 204773001196 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 204773001197 ATP binding site [chemical binding]; other site 204773001198 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 204773001199 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 204773001200 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 204773001201 AMIN domain; Region: AMIN; pfam11741 204773001202 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 204773001203 active site 204773001204 metal binding site [ion binding]; metal-binding site 204773001205 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 204773001206 Predicted permeases [General function prediction only]; Region: COG0679 204773001207 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 204773001208 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773001209 active site 204773001210 phosphorylation site [posttranslational modification] 204773001211 intermolecular recognition site; other site 204773001212 dimerization interface [polypeptide binding]; other site 204773001213 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 204773001214 DNA binding residues [nucleotide binding] 204773001215 dimerization interface [polypeptide binding]; other site 204773001216 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 204773001217 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 204773001218 putative active site [active] 204773001219 heme pocket [chemical binding]; other site 204773001220 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 204773001221 dimer interface [polypeptide binding]; other site 204773001222 phosphorylation site [posttranslational modification] 204773001223 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773001224 ATP binding site [chemical binding]; other site 204773001225 Mg2+ binding site [ion binding]; other site 204773001226 G-X-G motif; other site 204773001227 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 204773001228 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 204773001229 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 204773001230 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 204773001231 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 204773001232 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 204773001233 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 204773001234 DNA binding site [nucleotide binding] 204773001235 active site 204773001236 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 204773001237 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 204773001238 active site 204773001239 Int/Topo IB signature motif; other site 204773001240 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 204773001241 putative catalytic site [active] 204773001242 putative metal binding site [ion binding]; other site 204773001243 putative phosphate binding site [ion binding]; other site 204773001244 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 204773001245 putative deacylase active site [active] 204773001246 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 204773001247 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 204773001248 putative FMN binding site [chemical binding]; other site 204773001249 UGMP family protein; Validated; Region: PRK09604 204773001250 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 204773001251 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 204773001252 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 204773001253 active site 204773001254 phosphorylation site [posttranslational modification] 204773001255 intermolecular recognition site; other site 204773001256 dimerization interface [polypeptide binding]; other site 204773001257 ANTAR domain; Region: ANTAR; pfam03861 204773001258 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 204773001259 NMT1-like family; Region: NMT1_2; pfam13379 204773001260 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 204773001261 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 204773001262 dimer interface [polypeptide binding]; other site 204773001263 conserved gate region; other site 204773001264 putative PBP binding loops; other site 204773001265 ABC-ATPase subunit interface; other site 204773001266 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 204773001267 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 204773001268 Walker A/P-loop; other site 204773001269 ATP binding site [chemical binding]; other site 204773001270 Q-loop/lid; other site 204773001271 ABC transporter signature motif; other site 204773001272 Walker B; other site 204773001273 D-loop; other site 204773001274 H-loop/switch region; other site 204773001275 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 204773001276 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 204773001277 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 204773001278 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 204773001279 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 204773001280 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 204773001281 [2Fe-2S] cluster binding site [ion binding]; other site 204773001282 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 204773001283 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 204773001284 [4Fe-4S] binding site [ion binding]; other site 204773001285 molybdopterin cofactor binding site; other site 204773001286 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 204773001287 molybdopterin cofactor binding site; other site 204773001288 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 204773001289 HD domain; Region: HD_5; pfam13487 204773001290 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 204773001291 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 204773001292 Zn2+ binding site [ion binding]; other site 204773001293 Mg2+ binding site [ion binding]; other site 204773001294 glycosyl transferase family protein; Provisional; Region: PRK08136 204773001295 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 204773001296 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 204773001297 active site 204773001298 SAM binding site [chemical binding]; other site 204773001299 homodimer interface [polypeptide binding]; other site 204773001300 HI0933-like protein; Region: HI0933_like; pfam03486 204773001301 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 204773001302 Yqey-like protein; Region: YqeY; pfam09424 204773001303 DNA primase; Validated; Region: dnaG; PRK05667 204773001304 CHC2 zinc finger; Region: zf-CHC2; pfam01807 204773001305 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 204773001306 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 204773001307 active site 204773001308 metal binding site [ion binding]; metal-binding site 204773001309 interdomain interaction site; other site 204773001310 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 204773001311 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 204773001312 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 204773001313 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 204773001314 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 204773001315 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 204773001316 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 204773001317 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 204773001318 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 204773001319 DNA binding residues [nucleotide binding] 204773001320 Protein required for attachment to host cells; Region: Host_attach; pfam10116 204773001321 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 204773001322 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 204773001323 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 204773001324 Zn2+ binding site [ion binding]; other site 204773001325 Mg2+ binding site [ion binding]; other site 204773001326 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 204773001327 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 204773001328 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 204773001329 S-adenosylmethionine binding site [chemical binding]; other site 204773001330 Transcriptional regulator [Transcription]; Region: LysR; COG0583 204773001331 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204773001332 LysR substrate binding domain; Region: LysR_substrate; pfam03466 204773001333 dimerization interface [polypeptide binding]; other site 204773001334 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 204773001335 PAS fold; Region: PAS_3; pfam08447 204773001336 putative active site [active] 204773001337 heme pocket [chemical binding]; other site 204773001338 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 204773001339 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 204773001340 dimerization interface [polypeptide binding]; other site 204773001341 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 204773001342 dimer interface [polypeptide binding]; other site 204773001343 putative CheW interface [polypeptide binding]; other site 204773001344 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 204773001345 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 204773001346 ATP binding site [chemical binding]; other site 204773001347 Mg++ binding site [ion binding]; other site 204773001348 motif III; other site 204773001349 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 204773001350 nucleotide binding region [chemical binding]; other site 204773001351 ATP-binding site [chemical binding]; other site 204773001352 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 204773001353 active site 204773001354 HIGH motif; other site 204773001355 nucleotide binding site [chemical binding]; other site 204773001356 active site 204773001357 KMSKS motif; other site 204773001358 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204773001359 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 204773001360 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 204773001361 dimerization interface [polypeptide binding]; other site 204773001362 Pirin-related protein [General function prediction only]; Region: COG1741 204773001363 Pirin; Region: Pirin; pfam02678 204773001364 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK12457 204773001365 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 204773001366 rhodanese superfamily protein; Provisional; Region: PRK05320 204773001367 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 204773001368 active site residue [active] 204773001369 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 204773001370 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 204773001371 putative active site [active] 204773001372 putative PHP Thumb interface [polypeptide binding]; other site 204773001373 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 204773001374 generic binding surface II; other site 204773001375 generic binding surface I; other site 204773001376 O-Antigen ligase; Region: Wzy_C; pfam04932 204773001377 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 204773001378 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 204773001379 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 204773001380 Walker A/P-loop; other site 204773001381 ATP binding site [chemical binding]; other site 204773001382 Q-loop/lid; other site 204773001383 ABC transporter signature motif; other site 204773001384 Walker B; other site 204773001385 D-loop; other site 204773001386 H-loop/switch region; other site 204773001387 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 204773001388 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 204773001389 Probable Catalytic site; other site 204773001390 metal-binding site 204773001391 Methyltransferase domain; Region: Methyltransf_11; pfam08241 204773001392 haemagglutination activity domain; Region: Haemagg_act; pfam05860 204773001393 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 204773001394 adhesin HecA family 20-residue repeat (two copies); Region: fil_hemag_20aa; TIGR01731 204773001395 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 204773001396 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 204773001397 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 204773001398 Catalytic site; other site 204773001399 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 204773001400 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 204773001401 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 204773001402 Cytochrome c; Region: Cytochrom_C; cl11414 204773001403 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 204773001404 putative FMN binding site [chemical binding]; other site 204773001405 Arsenite oxidase (Arsenite-Ox) oxidizes arsenite to the less toxic arsenate; it transfers the electrons obtained from the oxidation of arsenite towards the soluble periplasmic electron carriers cytochrome c and/or amicyanin. Arsenite oxidase is a...; Region: MopB_Arsenite-Ox; cd02756 204773001406 arsenite oxidase, large subunit; Region: arsenite_ox_L; TIGR02693 204773001407 [3Fe-4S] binding site [ion binding]; other site 204773001408 molybdopterin cofactor binding site [chemical binding]; other site 204773001409 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 204773001410 molybdopterin cofactor binding site; other site 204773001411 Small subunit of Arsenite oxidase (ArOX) family, Rieske domain; ArOX is a molybdenum/iron protein involved in the detoxification of arsenic, oxidizing it to arsenate. It consists of two subunits, a large subunit similar to members of the DMSO reductase...; Region: Rieske_ArOX_small; cd03476 204773001412 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 204773001413 [2Fe-2S] cluster binding site [ion binding]; other site 204773001414 subunit interaction site [polypeptide binding]; other site 204773001415 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 204773001416 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 204773001417 HAMP domain; Region: HAMP; pfam00672 204773001418 dimerization interface [polypeptide binding]; other site 204773001419 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 204773001420 dimer interface [polypeptide binding]; other site 204773001421 phosphorylation site [posttranslational modification] 204773001422 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773001423 ATP binding site [chemical binding]; other site 204773001424 G-X-G motif; other site 204773001425 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 204773001426 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773001427 active site 204773001428 phosphorylation site [posttranslational modification] 204773001429 intermolecular recognition site; other site 204773001430 dimerization interface [polypeptide binding]; other site 204773001431 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 204773001432 Walker A motif; other site 204773001433 ATP binding site [chemical binding]; other site 204773001434 Walker B motif; other site 204773001435 arginine finger; other site 204773001436 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 204773001437 PBP superfamily domain; Region: PBP_like_2; cl17296 204773001438 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 204773001439 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 204773001440 dimer interface [polypeptide binding]; other site 204773001441 conserved gate region; other site 204773001442 putative PBP binding loops; other site 204773001443 ABC-ATPase subunit interface; other site 204773001444 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 204773001445 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 204773001446 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 204773001447 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 204773001448 dimer interface [polypeptide binding]; other site 204773001449 conserved gate region; other site 204773001450 putative PBP binding loops; other site 204773001451 ABC-ATPase subunit interface; other site 204773001452 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 204773001453 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 204773001454 Walker A/P-loop; other site 204773001455 ATP binding site [chemical binding]; other site 204773001456 Q-loop/lid; other site 204773001457 ABC transporter signature motif; other site 204773001458 Walker B; other site 204773001459 D-loop; other site 204773001460 H-loop/switch region; other site 204773001461 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 204773001462 PhoU domain; Region: PhoU; pfam01895 204773001463 PhoU domain; Region: PhoU; pfam01895 204773001464 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 204773001465 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773001466 active site 204773001467 phosphorylation site [posttranslational modification] 204773001468 intermolecular recognition site; other site 204773001469 dimerization interface [polypeptide binding]; other site 204773001470 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 204773001471 DNA binding site [nucleotide binding] 204773001472 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773001473 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773001474 metal binding site [ion binding]; metal-binding site 204773001475 active site 204773001476 I-site; other site 204773001477 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 204773001478 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 204773001479 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 204773001480 PBP superfamily domain; Region: PBP_like_2; cl17296 204773001481 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 204773001482 putative DNA binding site [nucleotide binding]; other site 204773001483 putative Zn2+ binding site [ion binding]; other site 204773001484 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 204773001485 Low molecular weight phosphatase family; Region: LMWPc; cd00115 204773001486 active site 204773001487 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 204773001488 arsenical pump membrane protein; Provisional; Region: PRK15445 204773001489 transmembrane helices; other site 204773001490 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 204773001491 ArsC family; Region: ArsC; pfam03960 204773001492 catalytic residues [active] 204773001493 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 204773001494 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 204773001495 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 204773001496 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 204773001497 putative transposase OrfB; Reviewed; Region: PHA02517 204773001498 HTH-like domain; Region: HTH_21; pfam13276 204773001499 Integrase core domain; Region: rve; pfam00665 204773001500 Integrase core domain; Region: rve_2; pfam13333 204773001501 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 204773001502 Helix-turn-helix domain; Region: HTH_28; pfam13518 204773001503 Helix-turn-helix domain; Region: HTH_28; pfam13518 204773001504 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 204773001505 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 204773001506 non-specific DNA binding site [nucleotide binding]; other site 204773001507 salt bridge; other site 204773001508 sequence-specific DNA binding site [nucleotide binding]; other site 204773001509 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 204773001510 phage/plasmid-like protein TIGR03299; Region: LGT_TIGR03299 204773001511 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 204773001512 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 204773001513 DNA binding residues [nucleotide binding] 204773001514 dimer interface [polypeptide binding]; other site 204773001515 putative metal binding site [ion binding]; other site 204773001516 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 204773001517 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 204773001518 Soluble P-type ATPase [General function prediction only]; Region: COG4087 204773001519 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 204773001520 Outer membrane efflux protein; Region: OEP; pfam02321 204773001521 Outer membrane efflux protein; Region: OEP; pfam02321 204773001522 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 204773001523 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 204773001524 HlyD family secretion protein; Region: HlyD_3; pfam13437 204773001525 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 204773001526 Nitrogen regulatory protein P-II; Region: P-II; smart00938 204773001527 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 204773001528 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 204773001529 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 204773001530 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 204773001531 Ligand binding site; other site 204773001532 Putative Catalytic site; other site 204773001533 DXD motif; other site 204773001534 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 204773001535 Outer membrane efflux protein; Region: OEP; pfam02321 204773001536 Outer membrane efflux protein; Region: OEP; pfam02321 204773001537 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 204773001538 HlyD family secretion protein; Region: HlyD_3; pfam13437 204773001539 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 204773001540 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 204773001541 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 204773001542 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 204773001543 metal-binding site [ion binding] 204773001544 sensor kinase CusS; Provisional; Region: PRK09835 204773001545 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 204773001546 dimerization interface [polypeptide binding]; other site 204773001547 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 204773001548 dimer interface [polypeptide binding]; other site 204773001549 phosphorylation site [posttranslational modification] 204773001550 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773001551 ATP binding site [chemical binding]; other site 204773001552 Mg2+ binding site [ion binding]; other site 204773001553 G-X-G motif; other site 204773001554 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 204773001555 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773001556 active site 204773001557 phosphorylation site [posttranslational modification] 204773001558 intermolecular recognition site; other site 204773001559 dimerization interface [polypeptide binding]; other site 204773001560 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 204773001561 DNA binding site [nucleotide binding] 204773001562 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 204773001563 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 204773001564 Multicopper oxidase; Region: Cu-oxidase; pfam00394 204773001565 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 204773001566 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 204773001567 Predicted metal-binding protein [General function prediction only]; Region: COG3019 204773001568 CopC domain; Region: CopC; pfam04234 204773001569 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 204773001570 putative transposase OrfB; Reviewed; Region: PHA02517 204773001571 HTH-like domain; Region: HTH_21; pfam13276 204773001572 Integrase core domain; Region: rve; pfam00665 204773001573 Integrase core domain; Region: rve_3; pfam13683 204773001574 Transposase; Region: HTH_Tnp_1; pfam01527 204773001575 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 204773001576 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 204773001577 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 204773001578 active site 204773001579 DNA binding site [nucleotide binding] 204773001580 Int/Topo IB signature motif; other site 204773001581 ribonuclease G; Provisional; Region: PRK11712 204773001582 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 204773001583 homodimer interface [polypeptide binding]; other site 204773001584 oligonucleotide binding site [chemical binding]; other site 204773001585 Maf-like protein; Region: Maf; pfam02545 204773001586 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 204773001587 active site 204773001588 dimer interface [polypeptide binding]; other site 204773001589 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 204773001590 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 204773001591 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 204773001592 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 204773001593 active site 204773001594 (T/H)XGH motif; other site 204773001595 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 204773001596 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 204773001597 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 204773001598 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 204773001599 putative ADP-binding pocket [chemical binding]; other site 204773001600 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 204773001601 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 204773001602 putative metal binding site; other site 204773001603 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 204773001604 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 204773001605 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 204773001606 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 204773001607 hypothetical protein; Validated; Region: PRK00110 204773001608 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 204773001609 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 204773001610 Walker A motif; other site 204773001611 ATP binding site [chemical binding]; other site 204773001612 Transcriptional regulator [Transcription]; Region: LysR; COG0583 204773001613 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204773001614 LysR substrate binding domain; Region: LysR_substrate; pfam03466 204773001615 dimerization interface [polypeptide binding]; other site 204773001616 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 204773001617 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 204773001618 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 204773001619 dimerization interface [polypeptide binding]; other site 204773001620 active site 204773001621 EamA-like transporter family; Region: EamA; pfam00892 204773001622 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 204773001623 EamA-like transporter family; Region: EamA; pfam00892 204773001624 short chain dehydrogenase; Provisional; Region: PRK08339 204773001625 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 204773001626 putative NAD(P) binding site [chemical binding]; other site 204773001627 putative active site [active] 204773001628 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 204773001629 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 204773001630 NADP binding site [chemical binding]; other site 204773001631 dimer interface [polypeptide binding]; other site 204773001632 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 204773001633 aminopeptidase N; Provisional; Region: pepN; PRK14015 204773001634 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 204773001635 active site 204773001636 Zn binding site [ion binding]; other site 204773001637 fructose-1,6-bisphosphatase family protein; Region: PLN02628 204773001638 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 204773001639 AMP binding site [chemical binding]; other site 204773001640 metal binding site [ion binding]; metal-binding site 204773001641 active site 204773001642 putative acyltransferase; Provisional; Region: PRK05790 204773001643 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 204773001644 dimer interface [polypeptide binding]; other site 204773001645 active site 204773001646 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 204773001647 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 204773001648 NAD(P) binding site [chemical binding]; other site 204773001649 homotetramer interface [polypeptide binding]; other site 204773001650 homodimer interface [polypeptide binding]; other site 204773001651 active site 204773001652 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 204773001653 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 204773001654 catalytic residues [active] 204773001655 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 204773001656 active site 204773001657 catalytic site [active] 204773001658 substrate binding site [chemical binding]; other site 204773001659 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 204773001660 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 204773001661 dimerization interface [polypeptide binding]; other site 204773001662 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 204773001663 dimer interface [polypeptide binding]; other site 204773001664 putative CheW interface [polypeptide binding]; other site 204773001665 S4 domain; Region: S4_2; pfam13275 204773001666 Predicted membrane protein [Function unknown]; Region: COG3686 204773001667 exonuclease I; Provisional; Region: sbcB; PRK11779 204773001668 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 204773001669 active site 204773001670 catalytic site [active] 204773001671 substrate binding site [chemical binding]; other site 204773001672 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 204773001673 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 204773001674 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 204773001675 ligand binding site [chemical binding]; other site 204773001676 flexible hinge region; other site 204773001677 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773001678 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773001679 metal binding site [ion binding]; metal-binding site 204773001680 active site 204773001681 I-site; other site 204773001682 HDOD domain; Region: HDOD; pfam08668 204773001683 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 204773001684 Zn2+ binding site [ion binding]; other site 204773001685 Mg2+ binding site [ion binding]; other site 204773001686 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773001687 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773001688 metal binding site [ion binding]; metal-binding site 204773001689 active site 204773001690 I-site; other site 204773001691 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 204773001692 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 204773001693 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 204773001694 LysE type translocator; Region: LysE; cl00565 204773001695 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 204773001696 Autotransporter beta-domain; Region: Autotransporter; smart00869 204773001697 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 204773001698 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 204773001699 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 204773001700 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773001701 ATP binding site [chemical binding]; other site 204773001702 Mg2+ binding site [ion binding]; other site 204773001703 G-X-G motif; other site 204773001704 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 204773001705 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773001706 active site 204773001707 phosphorylation site [posttranslational modification] 204773001708 intermolecular recognition site; other site 204773001709 dimerization interface [polypeptide binding]; other site 204773001710 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 204773001711 DNA binding residues [nucleotide binding] 204773001712 dimerization interface [polypeptide binding]; other site 204773001713 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 204773001714 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 204773001715 active site 204773001716 homotetramer interface [polypeptide binding]; other site 204773001717 Domain of unknown function (DUF336); Region: DUF336; cl01249 204773001718 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 204773001719 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773001720 active site 204773001721 phosphorylation site [posttranslational modification] 204773001722 intermolecular recognition site; other site 204773001723 dimerization interface [polypeptide binding]; other site 204773001724 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 204773001725 DNA binding site [nucleotide binding] 204773001726 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 204773001727 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 204773001728 dimerization interface [polypeptide binding]; other site 204773001729 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 204773001730 dimer interface [polypeptide binding]; other site 204773001731 phosphorylation site [posttranslational modification] 204773001732 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773001733 ATP binding site [chemical binding]; other site 204773001734 G-X-G motif; other site 204773001735 beta-lactamase TEM; Provisional; Region: PRK15442 204773001736 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 204773001737 Cupin domain; Region: Cupin_2; cl17218 204773001738 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_19; cd07262 204773001739 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 204773001740 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 204773001741 Divergent AAA domain; Region: AAA_4; pfam04326 204773001742 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 204773001743 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 204773001744 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 204773001745 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 204773001746 active site 204773001747 HIGH motif; other site 204773001748 nucleotide binding site [chemical binding]; other site 204773001749 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 204773001750 KMSKS motif; other site 204773001751 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 204773001752 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 204773001753 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 204773001754 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 204773001755 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 204773001756 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 204773001757 putative active site [active] 204773001758 catalytic site [active] 204773001759 putative metal binding site [ion binding]; other site 204773001760 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 204773001761 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 204773001762 motif 1; other site 204773001763 active site 204773001764 motif 2; other site 204773001765 motif 3; other site 204773001766 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 204773001767 DHHA1 domain; Region: DHHA1; pfam02272 204773001768 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 204773001769 CPxP motif; other site 204773001770 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 204773001771 Ligand binding site [chemical binding]; other site 204773001772 Electron transfer flavoprotein domain; Region: ETF; pfam01012 204773001773 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 204773001774 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 204773001775 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 204773001776 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 204773001777 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 204773001778 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 204773001779 active site 204773001780 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 204773001781 TM2 domain; Region: TM2; pfam05154 204773001782 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 204773001783 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 204773001784 RimM N-terminal domain; Region: RimM; pfam01782 204773001785 PRC-barrel domain; Region: PRC; pfam05239 204773001786 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 204773001787 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 204773001788 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 204773001789 putative active site [active] 204773001790 putative CoA binding site [chemical binding]; other site 204773001791 nudix motif; other site 204773001792 metal binding site [ion binding]; metal-binding site 204773001793 CobD/CbiB family protein; Provisional; Region: PRK07630 204773001794 CHASE domain; Region: CHASE; pfam03924 204773001795 PAS domain; Region: PAS_9; pfam13426 204773001796 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 204773001797 putative active site [active] 204773001798 heme pocket [chemical binding]; other site 204773001799 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773001800 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773001801 metal binding site [ion binding]; metal-binding site 204773001802 active site 204773001803 I-site; other site 204773001804 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 204773001805 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 204773001806 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 204773001807 DXD motif; other site 204773001808 HEAT repeats; Region: HEAT_2; pfam13646 204773001809 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 204773001810 Repair protein; Region: Repair_PSII; pfam04536 204773001811 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 204773001812 Repair protein; Region: Repair_PSII; pfam04536 204773001813 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 204773001814 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 204773001815 EamA-like transporter family; Region: EamA; pfam00892 204773001816 EamA-like transporter family; Region: EamA; pfam00892 204773001817 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 204773001818 active site 204773001819 dimer interface [polypeptide binding]; other site 204773001820 Competence-damaged protein; Region: CinA; pfam02464 204773001821 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 204773001822 tetramer interfaces [polypeptide binding]; other site 204773001823 binuclear metal-binding site [ion binding]; other site 204773001824 thiamine monophosphate kinase; Provisional; Region: PRK05731 204773001825 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 204773001826 ATP binding site [chemical binding]; other site 204773001827 dimerization interface [polypeptide binding]; other site 204773001828 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 204773001829 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 204773001830 Rubredoxin [Energy production and conversion]; Region: COG1773 204773001831 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 204773001832 iron binding site [ion binding]; other site 204773001833 Malate dehydrogenase enzyme; Region: Malate_DH; pfam12434 204773001834 malic enzyme; Reviewed; Region: PRK12862 204773001835 Malic enzyme, N-terminal domain; Region: malic; pfam00390 204773001836 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 204773001837 putative NAD(P) binding site [chemical binding]; other site 204773001838 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 204773001839 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 204773001840 Uncharacterized conserved protein [Function unknown]; Region: COG3339 204773001841 Predicted transcriptional regulator [Transcription]; Region: COG1959 204773001842 Transcriptional regulator; Region: Rrf2; cl17282 204773001843 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 204773001844 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 204773001845 heme-binding site [chemical binding]; other site 204773001846 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 204773001847 FAD binding pocket [chemical binding]; other site 204773001848 FAD binding motif [chemical binding]; other site 204773001849 phosphate binding motif [ion binding]; other site 204773001850 beta-alpha-beta structure motif; other site 204773001851 NAD binding pocket [chemical binding]; other site 204773001852 Heme binding pocket [chemical binding]; other site 204773001853 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 204773001854 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 204773001855 dimer interface [polypeptide binding]; other site 204773001856 ligand binding site [chemical binding]; other site 204773001857 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 204773001858 dimerization interface [polypeptide binding]; other site 204773001859 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 204773001860 dimer interface [polypeptide binding]; other site 204773001861 putative CheW interface [polypeptide binding]; other site 204773001862 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773001863 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773001864 metal binding site [ion binding]; metal-binding site 204773001865 active site 204773001866 I-site; other site 204773001867 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 204773001868 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 204773001869 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 204773001870 substrate binding pocket [chemical binding]; other site 204773001871 membrane-bound complex binding site; other site 204773001872 hinge residues; other site 204773001873 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 204773001874 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 204773001875 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 204773001876 Transposase; Region: DEDD_Tnp_IS110; pfam01548 204773001877 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 204773001878 Cell division inhibitor SulA; Region: SulA; cl01880 204773001879 DNA Polymerase Y-family; Region: PolY_like; cd03468 204773001880 DNA binding site [nucleotide binding] 204773001881 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 204773001882 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 204773001883 putative active site [active] 204773001884 putative PHP Thumb interface [polypeptide binding]; other site 204773001885 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 204773001886 generic binding surface I; other site 204773001887 generic binding surface II; other site 204773001888 PilZ domain; Region: PilZ; pfam07238 204773001889 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 204773001890 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 204773001891 active site 204773001892 motif I; other site 204773001893 motif II; other site 204773001894 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 204773001895 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 204773001896 Na binding site [ion binding]; other site 204773001897 Protein of unknown function, DUF485; Region: DUF485; pfam04341 204773001898 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 204773001899 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 204773001900 PAS domain; Region: PAS_9; pfam13426 204773001901 putative active site [active] 204773001902 heme pocket [chemical binding]; other site 204773001903 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 204773001904 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 204773001905 Walker A motif; other site 204773001906 ATP binding site [chemical binding]; other site 204773001907 Walker B motif; other site 204773001908 arginine finger; other site 204773001909 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 204773001910 dimer interface [polypeptide binding]; other site 204773001911 FMN binding site [chemical binding]; other site 204773001912 Cupin domain; Region: Cupin_2; pfam07883 204773001913 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 204773001914 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 204773001915 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204773001916 DNA-binding site [nucleotide binding]; DNA binding site 204773001917 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 204773001918 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204773001919 homodimer interface [polypeptide binding]; other site 204773001920 catalytic residue [active] 204773001921 Uncharacterized conserved protein [Function unknown]; Region: COG3189 204773001922 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 204773001923 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 204773001924 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 204773001925 MobA/MobL family; Region: MobA_MobL; pfam03389 204773001926 hypothetical protein; Reviewed; Region: PRK00024 204773001927 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 204773001928 MPN+ (JAMM) motif; other site 204773001929 Zinc-binding site [ion binding]; other site 204773001930 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 204773001931 Bacterial SH3 domain; Region: SH3_3; cl17532 204773001932 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 204773001933 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 204773001934 non-specific DNA binding site [nucleotide binding]; other site 204773001935 salt bridge; other site 204773001936 sequence-specific DNA binding site [nucleotide binding]; other site 204773001937 phage/plasmid-like protein TIGR03299; Region: LGT_TIGR03299 204773001938 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 204773001939 DNA methylase; Region: N6_N4_Mtase; cl17433 204773001940 DNA methylase; Region: N6_N4_Mtase; cl17433 204773001941 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 204773001942 DEAD-like helicases superfamily; Region: DEXDc; smart00487 204773001943 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 204773001944 ATP binding site [chemical binding]; other site 204773001945 putative Mg++ binding site [ion binding]; other site 204773001946 Protein of unknown function DUF262; Region: DUF262; pfam03235 204773001947 AAA domain; Region: AAA_23; pfam13476 204773001948 AAA domain; Region: AAA_21; pfam13304 204773001949 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204773001950 Walker B; other site 204773001951 D-loop; other site 204773001952 H-loop/switch region; other site 204773001953 integrase; Provisional; Region: PRK09692 204773001954 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 204773001955 active site 204773001956 Int/Topo IB signature motif; other site 204773001957 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 204773001958 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 204773001959 Predicted membrane protein [Function unknown]; Region: COG2860 204773001960 UPF0126 domain; Region: UPF0126; pfam03458 204773001961 UPF0126 domain; Region: UPF0126; pfam03458 204773001962 transcription termination factor Rho; Provisional; Region: rho; PRK09376 204773001963 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 204773001964 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 204773001965 RNA binding site [nucleotide binding]; other site 204773001966 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 204773001967 multimer interface [polypeptide binding]; other site 204773001968 Walker A motif; other site 204773001969 ATP binding site [chemical binding]; other site 204773001970 Walker B motif; other site 204773001971 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 204773001972 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 204773001973 catalytic residues [active] 204773001974 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 204773001975 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 204773001976 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 204773001977 Family description; Region: UvrD_C_2; pfam13538 204773001978 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 204773001979 Cell division protein ZapA; Region: ZapA; pfam05164 204773001980 EVE domain; Region: EVE; cl00728 204773001981 exopolysaccharide biosynthesis operon protein EpsL; Region: EpsL; TIGR03014 204773001982 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 204773001983 Bacterial sugar transferase; Region: Bac_transf; pfam02397 204773001984 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 204773001985 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 204773001986 SLBB domain; Region: SLBB; pfam10531 204773001987 chain length determinant protein EpsF; Region: EpsF; TIGR03017 204773001988 Chain length determinant protein; Region: Wzz; pfam02706 204773001989 chain length determinant protein tyrosine kinase EpsG; Region: EpsG; TIGR03029 204773001990 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 204773001991 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 204773001992 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 204773001993 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 204773001994 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 204773001995 active site 204773001996 O-Antigen ligase; Region: Wzy_C; pfam04932 204773001997 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 204773001998 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 204773001999 trimer interface [polypeptide binding]; other site 204773002000 active site 204773002001 substrate binding site [chemical binding]; other site 204773002002 CoA binding site [chemical binding]; other site 204773002003 colanic acid biosynthesis glycosyltransferase WcaL; Region: wcaL; TIGR04005 204773002004 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 204773002005 putative ADP-binding pocket [chemical binding]; other site 204773002006 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 204773002007 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 204773002008 DXD motif; other site 204773002009 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 204773002010 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 204773002011 anti sigma factor interaction site; other site 204773002012 regulatory phosphorylation site [posttranslational modification]; other site 204773002013 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 204773002014 UDP-glucose 4-epimerase; Region: PLN02240 204773002015 NAD binding site [chemical binding]; other site 204773002016 homodimer interface [polypeptide binding]; other site 204773002017 active site 204773002018 substrate binding site [chemical binding]; other site 204773002019 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 204773002020 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 204773002021 active site 204773002022 Substrate binding site; other site 204773002023 Mg++ binding site; other site 204773002024 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 204773002025 putative trimer interface [polypeptide binding]; other site 204773002026 putative CoA binding site [chemical binding]; other site 204773002027 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 204773002028 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 204773002029 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 204773002030 colanic acid exporter; Provisional; Region: PRK10459 204773002031 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 204773002032 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 204773002033 active site 204773002034 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 204773002035 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 204773002036 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 204773002037 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204773002038 The C-terminal substrate binding domain of LysR-type transcriptional regulator, IlvR, involved in the biosynthesis of isoleucine, leucine and valine; contains type 2 periplasmic binding fold; Region: PBP2_IlvR; cd08453 204773002039 putative dimerization interface [polypeptide binding]; other site 204773002040 putative substrate binding pocket [chemical binding]; other site 204773002041 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 204773002042 Cytochrome c; Region: Cytochrom_C; cl11414 204773002043 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 204773002044 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 204773002045 dimerization interface [polypeptide binding]; other site 204773002046 ligand binding site [chemical binding]; other site 204773002047 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 204773002048 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 204773002049 putative DNA binding site [nucleotide binding]; other site 204773002050 putative Zn2+ binding site [ion binding]; other site 204773002051 AsnC family; Region: AsnC_trans_reg; pfam01037 204773002052 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 204773002053 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 204773002054 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 204773002055 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 204773002056 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 204773002057 catalytic residues [active] 204773002058 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 204773002059 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 204773002060 active site 204773002061 Zn binding site [ion binding]; other site 204773002062 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 204773002063 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 204773002064 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 204773002065 homodimer interface [polypeptide binding]; other site 204773002066 NADP binding site [chemical binding]; other site 204773002067 substrate binding site [chemical binding]; other site 204773002068 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 204773002069 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 204773002070 dimer interface [polypeptide binding]; other site 204773002071 TPP-binding site [chemical binding]; other site 204773002072 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 204773002073 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 204773002074 E3 interaction surface; other site 204773002075 lipoyl attachment site [posttranslational modification]; other site 204773002076 e3 binding domain; Region: E3_binding; pfam02817 204773002077 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 204773002078 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 204773002079 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 204773002080 E3 interaction surface; other site 204773002081 lipoyl attachment site [posttranslational modification]; other site 204773002082 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 204773002083 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 204773002084 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 204773002085 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 204773002086 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 204773002087 active site 204773002088 catalytic triad [active] 204773002089 oxyanion hole [active] 204773002090 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 204773002091 NlpC/P60 family; Region: NLPC_P60; pfam00877 204773002092 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 204773002093 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 204773002094 inhibitor-cofactor binding pocket; inhibition site 204773002095 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204773002096 catalytic residue [active] 204773002097 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 204773002098 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 204773002099 catalytic loop [active] 204773002100 iron binding site [ion binding]; other site 204773002101 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 204773002102 FAD binding pocket [chemical binding]; other site 204773002103 FAD binding motif [chemical binding]; other site 204773002104 phosphate binding motif [ion binding]; other site 204773002105 beta-alpha-beta structure motif; other site 204773002106 NAD binding pocket [chemical binding]; other site 204773002107 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 204773002108 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 204773002109 putative NAD(P) binding site [chemical binding]; other site 204773002110 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 204773002111 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 204773002112 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 204773002113 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 204773002114 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 204773002115 Walker A motif; other site 204773002116 ATP binding site [chemical binding]; other site 204773002117 Walker B motif; other site 204773002118 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 204773002119 S-adenosylmethionine binding site [chemical binding]; other site 204773002120 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 204773002121 putative active site [active] 204773002122 short chain dehydrogenase; Provisional; Region: PRK06123 204773002123 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 204773002124 NAD(P) binding site [chemical binding]; other site 204773002125 active site 204773002126 Ecotin; Region: Ecotin; pfam03974 204773002127 secondary substrate binding site; other site 204773002128 primary substrate binding site; other site 204773002129 inhibition loop; other site 204773002130 dimerization interface [polypeptide binding]; other site 204773002131 LexA regulated protein; Provisional; Region: PRK11675 204773002132 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 204773002133 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 204773002134 Aspartase; Region: Aspartase; cd01357 204773002135 active sites [active] 204773002136 tetramer interface [polypeptide binding]; other site 204773002137 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204773002138 transcriptional activator TtdR; Provisional; Region: PRK09801 204773002139 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_9; cd08479 204773002140 putative effector binding pocket; other site 204773002141 putative dimerization interface [polypeptide binding]; other site 204773002142 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 204773002143 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 204773002144 isopropylmalate isomerase large subunit; Provisional; Region: PRK12466 204773002145 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 204773002146 substrate binding site [chemical binding]; other site 204773002147 ligand binding site [chemical binding]; other site 204773002148 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 204773002149 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 204773002150 substrate binding site [chemical binding]; other site 204773002151 YcaO domain protein; Region: TIGR03549 204773002152 OsmC-like protein; Region: OsmC; pfam02566 204773002153 YcaO-like family; Region: YcaO; pfam02624 204773002154 HAMP domain; Region: HAMP; pfam00672 204773002155 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773002156 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773002157 metal binding site [ion binding]; metal-binding site 204773002158 active site 204773002159 I-site; other site 204773002160 PAS fold; Region: PAS_4; pfam08448 204773002161 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773002162 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773002163 metal binding site [ion binding]; metal-binding site 204773002164 active site 204773002165 I-site; other site 204773002166 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773002167 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773002168 metal binding site [ion binding]; metal-binding site 204773002169 active site 204773002170 I-site; other site 204773002171 heat shock protein 90; Provisional; Region: PRK05218 204773002172 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773002173 ATP binding site [chemical binding]; other site 204773002174 Mg2+ binding site [ion binding]; other site 204773002175 G-X-G motif; other site 204773002176 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 204773002177 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204773002178 DNA-binding site [nucleotide binding]; DNA binding site 204773002179 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 204773002180 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204773002181 homodimer interface [polypeptide binding]; other site 204773002182 catalytic residue [active] 204773002183 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 204773002184 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 204773002185 EamA-like transporter family; Region: EamA; pfam00892 204773002186 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 204773002187 homotrimer interaction site [polypeptide binding]; other site 204773002188 putative active site [active] 204773002189 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 204773002190 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 204773002191 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204773002192 homodimer interface [polypeptide binding]; other site 204773002193 catalytic residue [active] 204773002194 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 204773002195 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 204773002196 CAP-like domain; other site 204773002197 active site 204773002198 primary dimer interface [polypeptide binding]; other site 204773002199 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 204773002200 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 204773002201 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 204773002202 N-acetyl-D-glucosamine binding site [chemical binding]; other site 204773002203 catalytic residue [active] 204773002204 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 204773002205 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773002206 ATP binding site [chemical binding]; other site 204773002207 Mg2+ binding site [ion binding]; other site 204773002208 G-X-G motif; other site 204773002209 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 204773002210 anchoring element; other site 204773002211 dimer interface [polypeptide binding]; other site 204773002212 ATP binding site [chemical binding]; other site 204773002213 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 204773002214 active site 204773002215 putative metal-binding site [ion binding]; other site 204773002216 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 204773002217 Response regulator receiver domain; Region: Response_reg; pfam00072 204773002218 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773002219 active site 204773002220 phosphorylation site [posttranslational modification] 204773002221 intermolecular recognition site; other site 204773002222 dimerization interface [polypeptide binding]; other site 204773002223 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 204773002224 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 204773002225 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 204773002226 Walker A motif; other site 204773002227 ATP binding site [chemical binding]; other site 204773002228 Walker B motif; other site 204773002229 arginine finger; other site 204773002230 Site-specific recombinase; Region: SpecificRecomb; pfam10136 204773002231 Cytochrome c553 [Energy production and conversion]; Region: COG2863 204773002232 Cytochrome c553 [Energy production and conversion]; Region: COG2863 204773002233 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 204773002234 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 204773002235 putative FMN binding site [chemical binding]; other site 204773002236 endonuclease III; Provisional; Region: PRK10702 204773002237 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 204773002238 minor groove reading motif; other site 204773002239 helix-hairpin-helix signature motif; other site 204773002240 substrate binding pocket [chemical binding]; other site 204773002241 active site 204773002242 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 204773002243 ferredoxin; Provisional; Region: PRK08764 204773002244 Putative Fe-S cluster; Region: FeS; pfam04060 204773002245 4Fe-4S binding domain; Region: Fer4; pfam00037 204773002246 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 204773002247 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 204773002248 Ferredoxin [Energy production and conversion]; Region: COG1146 204773002249 4Fe-4S binding domain; Region: Fer4; pfam00037 204773002250 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 204773002251 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 204773002252 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 204773002253 transmembrane helices; other site 204773002254 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 204773002255 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 204773002256 dimerization interface [polypeptide binding]; other site 204773002257 ligand binding site [chemical binding]; other site 204773002258 NADP binding site [chemical binding]; other site 204773002259 catalytic site [active] 204773002260 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; pfam09650 204773002261 Acyl CoA binding protein; Region: ACBP; pfam00887 204773002262 acyl-CoA binding pocket [chemical binding]; other site 204773002263 CoA binding site [chemical binding]; other site 204773002264 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 204773002265 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 204773002266 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 204773002267 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 204773002268 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 204773002269 putative MPT binding site; other site 204773002270 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 204773002271 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 204773002272 Walker A/P-loop; other site 204773002273 ATP binding site [chemical binding]; other site 204773002274 Q-loop/lid; other site 204773002275 ABC transporter signature motif; other site 204773002276 Walker B; other site 204773002277 D-loop; other site 204773002278 H-loop/switch region; other site 204773002279 TOBE domain; Region: TOBE_2; pfam08402 204773002280 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 204773002281 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 204773002282 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 204773002283 dimer interface [polypeptide binding]; other site 204773002284 conserved gate region; other site 204773002285 putative PBP binding loops; other site 204773002286 ABC-ATPase subunit interface; other site 204773002287 Phasin protein; Region: Phasin_2; pfam09361 204773002288 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 204773002289 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 204773002290 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 204773002291 Transcriptional regulator [Transcription]; Region: IclR; COG1414 204773002292 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 204773002293 Bacterial transcriptional regulator; Region: IclR; pfam01614 204773002294 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 204773002295 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 204773002296 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 204773002297 substrate binding pocket [chemical binding]; other site 204773002298 membrane-bound complex binding site; other site 204773002299 hinge residues; other site 204773002300 Cytochrome c2 [Energy production and conversion]; Region: COG3474 204773002301 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 204773002302 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 204773002303 dimer interface [polypeptide binding]; other site 204773002304 conserved gate region; other site 204773002305 ABC-ATPase subunit interface; other site 204773002306 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 204773002307 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 204773002308 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 204773002309 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204773002310 Walker A/P-loop; other site 204773002311 ATP binding site [chemical binding]; other site 204773002312 Q-loop/lid; other site 204773002313 ABC transporter signature motif; other site 204773002314 Walker B; other site 204773002315 D-loop; other site 204773002316 H-loop/switch region; other site 204773002317 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 204773002318 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 204773002319 substrate binding pocket [chemical binding]; other site 204773002320 membrane-bound complex binding site; other site 204773002321 hinge residues; other site 204773002322 selenophosphate synthetase; Provisional; Region: PRK00943 204773002323 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 204773002324 dimerization interface [polypeptide binding]; other site 204773002325 putative ATP binding site [chemical binding]; other site 204773002326 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 204773002327 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 204773002328 active site residue [active] 204773002329 AAA domain; Region: AAA_17; pfam13207 204773002330 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 204773002331 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 204773002332 non-specific DNA binding site [nucleotide binding]; other site 204773002333 salt bridge; other site 204773002334 sequence-specific DNA binding site [nucleotide binding]; other site 204773002335 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 204773002336 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 204773002337 dimer interface [polypeptide binding]; other site 204773002338 active site 204773002339 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 204773002340 catalytic residues [active] 204773002341 substrate binding site [chemical binding]; other site 204773002342 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 204773002343 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 204773002344 NAD(P) binding pocket [chemical binding]; other site 204773002345 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 204773002346 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 204773002347 dimer interface [polypeptide binding]; other site 204773002348 conserved gate region; other site 204773002349 putative PBP binding loops; other site 204773002350 ABC-ATPase subunit interface; other site 204773002351 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 204773002352 dimer interface [polypeptide binding]; other site 204773002353 conserved gate region; other site 204773002354 putative PBP binding loops; other site 204773002355 ABC-ATPase subunit interface; other site 204773002356 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 204773002357 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 204773002358 Walker A/P-loop; other site 204773002359 ATP binding site [chemical binding]; other site 204773002360 Q-loop/lid; other site 204773002361 ABC transporter signature motif; other site 204773002362 Walker B; other site 204773002363 D-loop; other site 204773002364 H-loop/switch region; other site 204773002365 TOBE-like domain; Region: TOBE_3; pfam12857 204773002366 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 204773002367 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204773002368 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 204773002369 substrate binding site [chemical binding]; other site 204773002370 dimerization interface [polypeptide binding]; other site 204773002371 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 204773002372 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 204773002373 E-class dimer interface [polypeptide binding]; other site 204773002374 P-class dimer interface [polypeptide binding]; other site 204773002375 active site 204773002376 Cu2+ binding site [ion binding]; other site 204773002377 Zn2+ binding site [ion binding]; other site 204773002378 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 204773002379 Peptidase family M48; Region: Peptidase_M48; cl12018 204773002380 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 204773002381 trimer interface [polypeptide binding]; other site 204773002382 active site 204773002383 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 204773002384 Flavoprotein; Region: Flavoprotein; pfam02441 204773002385 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 204773002386 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 204773002387 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 204773002388 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 204773002389 active site 204773002390 HIGH motif; other site 204773002391 nucleotide binding site [chemical binding]; other site 204773002392 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 204773002393 active site 204773002394 KMSKS motif; other site 204773002395 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 204773002396 tRNA binding surface [nucleotide binding]; other site 204773002397 anticodon binding site; other site 204773002398 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 204773002399 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 204773002400 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 204773002401 active site 204773002402 Riboflavin kinase; Region: Flavokinase; smart00904 204773002403 RNA methyltransferase, RsmE family; Region: TIGR00046 204773002404 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 204773002405 transketolase; Reviewed; Region: PRK12753 204773002406 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 204773002407 TPP-binding site [chemical binding]; other site 204773002408 dimer interface [polypeptide binding]; other site 204773002409 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 204773002410 PYR/PP interface [polypeptide binding]; other site 204773002411 dimer interface [polypeptide binding]; other site 204773002412 TPP binding site [chemical binding]; other site 204773002413 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 204773002414 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 204773002415 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 204773002416 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 204773002417 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 204773002418 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 204773002419 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 204773002420 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 204773002421 PhnA protein; Region: PhnA; pfam03831 204773002422 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 204773002423 RNA polymerase sigma factor; Provisional; Region: PRK12537 204773002424 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 204773002425 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 204773002426 DNA binding residues [nucleotide binding] 204773002427 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 204773002428 Anti-sigma-K factor rskA; Region: RskA; pfam10099 204773002429 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 204773002430 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 204773002431 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 204773002432 metal binding triad; other site 204773002433 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 204773002434 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 204773002435 metal binding triad; other site 204773002436 TIGR02099 family protein; Region: TIGR02099 204773002437 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 204773002438 nitrilase; Region: PLN02798 204773002439 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 204773002440 putative active site [active] 204773002441 catalytic triad [active] 204773002442 dimer interface [polypeptide binding]; other site 204773002443 protease TldD; Provisional; Region: tldD; PRK10735 204773002444 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 204773002445 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 204773002446 Predicted aspartyl protease [General function prediction only]; Region: COG3577 204773002447 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 204773002448 catalytic motif [active] 204773002449 Catalytic residue [active] 204773002450 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 204773002451 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 204773002452 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 204773002453 FAD binding domain; Region: FAD_binding_4; pfam01565 204773002454 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 204773002455 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 204773002456 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 204773002457 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 204773002458 active site 204773002459 Zn binding site [ion binding]; other site 204773002460 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 204773002461 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 204773002462 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 204773002463 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 204773002464 argininosuccinate synthase; Validated; Region: PRK05370 204773002465 ornithine carbamoyltransferase; Provisional; Region: PRK00779 204773002466 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 204773002467 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 204773002468 GTPase RsgA; Reviewed; Region: PRK00098 204773002469 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 204773002470 RNA binding site [nucleotide binding]; other site 204773002471 homodimer interface [polypeptide binding]; other site 204773002472 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 204773002473 GTPase/Zn-binding domain interface [polypeptide binding]; other site 204773002474 GTP/Mg2+ binding site [chemical binding]; other site 204773002475 G4 box; other site 204773002476 G5 box; other site 204773002477 G1 box; other site 204773002478 Switch I region; other site 204773002479 G2 box; other site 204773002480 G3 box; other site 204773002481 Switch II region; other site 204773002482 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 204773002483 aromatic arch; other site 204773002484 DCoH dimer interaction site [polypeptide binding]; other site 204773002485 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 204773002486 DCoH tetramer interaction site [polypeptide binding]; other site 204773002487 substrate binding site [chemical binding]; other site 204773002488 Peptidase family M48; Region: Peptidase_M48; pfam01435 204773002489 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 204773002490 catalytic site [active] 204773002491 putative active site [active] 204773002492 putative substrate binding site [chemical binding]; other site 204773002493 dimer interface [polypeptide binding]; other site 204773002494 hypothetical protein; Provisional; Region: PRK10396 204773002495 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 204773002496 serine/threonine protein kinase; Provisional; Region: PRK11768 204773002497 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 204773002498 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204773002499 LysR substrate binding domain; Region: LysR_substrate; pfam03466 204773002500 dimerization interface [polypeptide binding]; other site 204773002501 FOG: Ankyrin repeat [General function prediction only]; Region: Arp; COG0666 204773002502 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 204773002503 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 204773002504 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 204773002505 nucleoside/Zn binding site; other site 204773002506 dimer interface [polypeptide binding]; other site 204773002507 catalytic motif [active] 204773002508 putative cyanate transporter; Provisional; Region: cynX; PRK09705 204773002509 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_2; cd08822 204773002510 putative active site [active] 204773002511 putative substrate binding site [chemical binding]; other site 204773002512 putative cosubstrate binding site; other site 204773002513 catalytic site [active] 204773002514 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 204773002515 ACT domain; Region: ACT_6; pfam13740 204773002516 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 204773002517 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 204773002518 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 204773002519 catalytic residue [active] 204773002520 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 204773002521 Response regulator receiver domain; Region: Response_reg; pfam00072 204773002522 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773002523 active site 204773002524 phosphorylation site [posttranslational modification] 204773002525 intermolecular recognition site; other site 204773002526 dimerization interface [polypeptide binding]; other site 204773002527 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 204773002528 Chromate transporter; Region: Chromate_transp; pfam02417 204773002529 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 204773002530 hypothetical protein; Provisional; Region: PRK09272 204773002531 AAA ATPase domain; Region: AAA_16; pfam13191 204773002532 Predicted ATPase [General function prediction only]; Region: COG3899 204773002533 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 204773002534 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 204773002535 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 204773002536 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773002537 ATP binding site [chemical binding]; other site 204773002538 Mg2+ binding site [ion binding]; other site 204773002539 G-X-G motif; other site 204773002540 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 204773002541 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773002542 active site 204773002543 phosphorylation site [posttranslational modification] 204773002544 intermolecular recognition site; other site 204773002545 dimerization interface [polypeptide binding]; other site 204773002546 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 204773002547 dimer interface [polypeptide binding]; other site 204773002548 phosphorylation site [posttranslational modification] 204773002549 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773002550 ATP binding site [chemical binding]; other site 204773002551 Mg2+ binding site [ion binding]; other site 204773002552 G-X-G motif; other site 204773002553 Response regulator receiver domain; Region: Response_reg; pfam00072 204773002554 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773002555 active site 204773002556 phosphorylation site [posttranslational modification] 204773002557 intermolecular recognition site; other site 204773002558 dimerization interface [polypeptide binding]; other site 204773002559 TPR repeat; Region: TPR_11; pfam13414 204773002560 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 204773002561 binding surface 204773002562 TPR motif; other site 204773002563 SnoaL-like domain; Region: SnoaL_3; pfam13474 204773002564 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 204773002565 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 204773002566 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 204773002567 Ligand Binding Site [chemical binding]; other site 204773002568 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 204773002569 putative substrate translocation pore; other site 204773002570 Major Facilitator Superfamily; Region: MFS_1; pfam07690 204773002571 Putative transcription activator [Transcription]; Region: TenA; COG0819 204773002572 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 204773002573 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 204773002574 homodimer interface [polypeptide binding]; other site 204773002575 chemical substrate binding site [chemical binding]; other site 204773002576 oligomer interface [polypeptide binding]; other site 204773002577 metal binding site [ion binding]; metal-binding site 204773002578 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 204773002579 Protein of unknown function (DUF2541); Region: DUF2541; cl08090 204773002580 Predicted transporter component [General function prediction only]; Region: COG2391 204773002581 Sulphur transport; Region: Sulf_transp; pfam04143 204773002582 Predicted transporter component [General function prediction only]; Region: COG2391 204773002583 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 204773002584 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 204773002585 dimerization interface [polypeptide binding]; other site 204773002586 putative DNA binding site [nucleotide binding]; other site 204773002587 putative Zn2+ binding site [ion binding]; other site 204773002588 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 204773002589 glutamate racemase; Provisional; Region: PRK00865 204773002590 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 204773002591 Fumarase C-terminus; Region: Fumerase_C; pfam05683 204773002592 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 204773002593 acetyl-CoA synthetase; Provisional; Region: PRK00174 204773002594 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 204773002595 active site 204773002596 CoA binding site [chemical binding]; other site 204773002597 acyl-activating enzyme (AAE) consensus motif; other site 204773002598 AMP binding site [chemical binding]; other site 204773002599 acetate binding site [chemical binding]; other site 204773002600 transcription termination factor Rho; Provisional; Region: PRK12678 204773002601 CHASE3 domain; Region: CHASE3; pfam05227 204773002602 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 204773002603 dimer interface [polypeptide binding]; other site 204773002604 phosphorylation site [posttranslational modification] 204773002605 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773002606 ATP binding site [chemical binding]; other site 204773002607 Mg2+ binding site [ion binding]; other site 204773002608 G-X-G motif; other site 204773002609 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 204773002610 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773002611 active site 204773002612 phosphorylation site [posttranslational modification] 204773002613 intermolecular recognition site; other site 204773002614 dimerization interface [polypeptide binding]; other site 204773002615 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 204773002616 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773002617 active site 204773002618 phosphorylation site [posttranslational modification] 204773002619 intermolecular recognition site; other site 204773002620 dimerization interface [polypeptide binding]; other site 204773002621 PAS fold; Region: PAS_4; pfam08448 204773002622 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 204773002623 PAS domain; Region: PAS_9; pfam13426 204773002624 putative active site [active] 204773002625 heme pocket [chemical binding]; other site 204773002626 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773002627 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773002628 metal binding site [ion binding]; metal-binding site 204773002629 active site 204773002630 I-site; other site 204773002631 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 204773002632 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 204773002633 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 204773002634 FAD binding pocket [chemical binding]; other site 204773002635 FAD binding motif [chemical binding]; other site 204773002636 phosphate binding motif [ion binding]; other site 204773002637 beta-alpha-beta structure motif; other site 204773002638 NAD binding pocket [chemical binding]; other site 204773002639 macrolide transporter subunit MacA; Provisional; Region: PRK11578 204773002640 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 204773002641 HlyD family secretion protein; Region: HlyD_3; pfam13437 204773002642 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 204773002643 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 204773002644 Walker A/P-loop; other site 204773002645 ATP binding site [chemical binding]; other site 204773002646 Q-loop/lid; other site 204773002647 ABC transporter signature motif; other site 204773002648 Walker B; other site 204773002649 D-loop; other site 204773002650 H-loop/switch region; other site 204773002651 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 204773002652 FtsX-like permease family; Region: FtsX; pfam02687 204773002653 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 204773002654 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 204773002655 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 204773002656 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 204773002657 substrate binding pocket [chemical binding]; other site 204773002658 membrane-bound complex binding site; other site 204773002659 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 204773002660 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 204773002661 substrate binding pocket [chemical binding]; other site 204773002662 membrane-bound complex binding site; other site 204773002663 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 204773002664 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 204773002665 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 204773002666 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 204773002667 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 204773002668 G1 box; other site 204773002669 putative GEF interaction site [polypeptide binding]; other site 204773002670 GTP/Mg2+ binding site [chemical binding]; other site 204773002671 Switch I region; other site 204773002672 G2 box; other site 204773002673 G3 box; other site 204773002674 Switch II region; other site 204773002675 G4 box; other site 204773002676 G5 box; other site 204773002677 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 204773002678 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 204773002679 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 204773002680 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 204773002681 active site residue [active] 204773002682 glutamine synthetase; Provisional; Region: glnA; PRK09469 204773002683 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 204773002684 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 204773002685 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 204773002686 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 204773002687 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 204773002688 dimer interface [polypeptide binding]; other site 204773002689 phosphorylation site [posttranslational modification] 204773002690 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773002691 ATP binding site [chemical binding]; other site 204773002692 Mg2+ binding site [ion binding]; other site 204773002693 G-X-G motif; other site 204773002694 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 204773002695 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773002696 active site 204773002697 phosphorylation site [posttranslational modification] 204773002698 intermolecular recognition site; other site 204773002699 dimerization interface [polypeptide binding]; other site 204773002700 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 204773002701 Walker A motif; other site 204773002702 ATP binding site [chemical binding]; other site 204773002703 Walker B motif; other site 204773002704 arginine finger; other site 204773002705 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 204773002706 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 204773002707 putative binding surface; other site 204773002708 active site 204773002709 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 204773002710 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 204773002711 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773002712 ATP binding site [chemical binding]; other site 204773002713 Mg2+ binding site [ion binding]; other site 204773002714 G-X-G motif; other site 204773002715 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 204773002716 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 204773002717 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 204773002718 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 204773002719 putative dimer interface [polypeptide binding]; other site 204773002720 active site pocket [active] 204773002721 putative cataytic base [active] 204773002722 cobalamin synthase; Reviewed; Region: cobS; PRK00235 204773002723 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 204773002724 catalytic core [active] 204773002725 RIO kinase family, 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 kinases (PKs), aminoglycoside...; Region: RIO; cl17248 204773002726 ATP binding site [chemical binding]; other site 204773002727 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 204773002728 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 204773002729 N-terminal plug; other site 204773002730 ligand-binding site [chemical binding]; other site 204773002731 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 204773002732 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 204773002733 N-terminal plug; other site 204773002734 ligand-binding site [chemical binding]; other site 204773002735 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 204773002736 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 204773002737 ABC-ATPase subunit interface; other site 204773002738 dimer interface [polypeptide binding]; other site 204773002739 putative PBP binding regions; other site 204773002740 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 204773002741 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 204773002742 Walker A/P-loop; other site 204773002743 ATP binding site [chemical binding]; other site 204773002744 Q-loop/lid; other site 204773002745 ABC transporter signature motif; other site 204773002746 Walker B; other site 204773002747 D-loop; other site 204773002748 H-loop/switch region; other site 204773002749 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 204773002750 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 204773002751 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 204773002752 Walker A motif; other site 204773002753 homodimer interface [polypeptide binding]; other site 204773002754 ATP binding site [chemical binding]; other site 204773002755 hydroxycobalamin binding site [chemical binding]; other site 204773002756 Walker B motif; other site 204773002757 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 204773002758 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 204773002759 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 204773002760 catalytic triad [active] 204773002761 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 204773002762 homotrimer interface [polypeptide binding]; other site 204773002763 Walker A motif; other site 204773002764 GTP binding site [chemical binding]; other site 204773002765 Walker B motif; other site 204773002766 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 204773002767 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 204773002768 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 204773002769 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204773002770 homodimer interface [polypeptide binding]; other site 204773002771 catalytic residue [active] 204773002772 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 204773002773 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 204773002774 cobalamin binding residues [chemical binding]; other site 204773002775 putative BtuC binding residues; other site 204773002776 dimer interface [polypeptide binding]; other site 204773002777 cobyric acid synthase; Provisional; Region: PRK00784 204773002778 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 204773002779 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 204773002780 catalytic triad [active] 204773002781 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 204773002782 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 204773002783 P-loop; other site 204773002784 Magnesium ion binding site [ion binding]; other site 204773002785 DinB family; Region: DinB; cl17821 204773002786 DinB superfamily; Region: DinB_2; pfam12867 204773002787 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 204773002788 pantoate--beta-alanine ligase; Region: panC; TIGR00018 204773002789 Pantoate-beta-alanine ligase; Region: PanC; cd00560 204773002790 active site 204773002791 ATP-binding site [chemical binding]; other site 204773002792 pantoate-binding site; other site 204773002793 HXXH motif; other site 204773002794 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 204773002795 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 204773002796 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 204773002797 putative transporter; Provisional; Region: PRK11660 204773002798 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 204773002799 Sulfate transporter family; Region: Sulfate_transp; pfam00916 204773002800 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 204773002801 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 204773002802 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 204773002803 active site 204773002804 HIGH motif; other site 204773002805 KMSKS motif; other site 204773002806 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 204773002807 tRNA binding surface [nucleotide binding]; other site 204773002808 anticodon binding site; other site 204773002809 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 204773002810 dimer interface [polypeptide binding]; other site 204773002811 putative tRNA-binding site [nucleotide binding]; other site 204773002812 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 204773002813 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 204773002814 active site 204773002815 HIGH motif; other site 204773002816 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 204773002817 active site 204773002818 KMSKS motif; other site 204773002819 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 204773002820 MarR family; Region: MarR_2; cl17246 204773002821 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 204773002822 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 204773002823 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 204773002824 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 204773002825 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 204773002826 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 204773002827 putative substrate translocation pore; other site 204773002828 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 204773002829 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 204773002830 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 204773002831 elongation factor P; Validated; Region: PRK00529 204773002832 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 204773002833 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 204773002834 RNA binding site [nucleotide binding]; other site 204773002835 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 204773002836 RNA binding site [nucleotide binding]; other site 204773002837 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 204773002838 Bacterial protein of unknown function (DUF898); Region: DUF898; pfam05987 204773002839 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 204773002840 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 204773002841 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 204773002842 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 204773002843 putative active site [active] 204773002844 putative substrate binding site [chemical binding]; other site 204773002845 putative cosubstrate binding site; other site 204773002846 catalytic site [active] 204773002847 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 204773002848 Serine hydrolase (FSH1); Region: FSH1; pfam03959 204773002849 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 204773002850 MPT binding site; other site 204773002851 trimer interface [polypeptide binding]; other site 204773002852 hypothetical protein; Provisional; Region: PRK05255 204773002853 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 204773002854 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 204773002855 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 204773002856 putative active site [active] 204773002857 putative NTP binding site [chemical binding]; other site 204773002858 putative nucleic acid binding site [nucleotide binding]; other site 204773002859 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 204773002860 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 204773002861 active site 204773002862 peptidase PmbA; Provisional; Region: PRK11040 204773002863 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 204773002864 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 204773002865 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 204773002866 DctM-like transporters; Region: DctM; pfam06808 204773002867 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 204773002868 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 204773002869 argininosuccinate lyase; Provisional; Region: PRK00855 204773002870 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 204773002871 active sites [active] 204773002872 tetramer interface [polypeptide binding]; other site 204773002873 Histidine kinase; Region: His_kinase; pfam06580 204773002874 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 204773002875 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773002876 active site 204773002877 phosphorylation site [posttranslational modification] 204773002878 intermolecular recognition site; other site 204773002879 dimerization interface [polypeptide binding]; other site 204773002880 LytTr DNA-binding domain; Region: LytTR; smart00850 204773002881 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 204773002882 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 204773002883 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 204773002884 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 204773002885 domain interfaces; other site 204773002886 active site 204773002887 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 204773002888 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 204773002889 active site 204773002890 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 204773002891 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 204773002892 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 204773002893 HemY protein N-terminus; Region: HemY_N; pfam07219 204773002894 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 204773002895 dimer interface [polypeptide binding]; other site 204773002896 substrate binding site [chemical binding]; other site 204773002897 metal binding sites [ion binding]; metal-binding site 204773002898 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 204773002899 Catalytic domain of Protein Kinases; Region: PKc; cd00180 204773002900 active site 204773002901 ATP binding site [chemical binding]; other site 204773002902 substrate binding site [chemical binding]; other site 204773002903 activation loop (A-loop); other site 204773002904 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 204773002905 Protein of unknown function, DUF482; Region: DUF482; pfam04339 204773002906 NAD synthetase; Provisional; Region: PRK13981 204773002907 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 204773002908 multimer interface [polypeptide binding]; other site 204773002909 active site 204773002910 catalytic triad [active] 204773002911 protein interface 1 [polypeptide binding]; other site 204773002912 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 204773002913 homodimer interface [polypeptide binding]; other site 204773002914 NAD binding pocket [chemical binding]; other site 204773002915 ATP binding pocket [chemical binding]; other site 204773002916 Mg binding site [ion binding]; other site 204773002917 active-site loop [active] 204773002918 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 204773002919 Nitrogen regulatory protein P-II; Region: P-II; smart00938 204773002920 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 204773002921 Smr domain; Region: Smr; pfam01713 204773002922 thioredoxin reductase; Provisional; Region: PRK10262 204773002923 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 204773002924 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 204773002925 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 204773002926 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 204773002927 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 204773002928 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 204773002929 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 204773002930 recombination factor protein RarA; Reviewed; Region: PRK13342 204773002931 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 204773002932 Walker A motif; other site 204773002933 ATP binding site [chemical binding]; other site 204773002934 Walker B motif; other site 204773002935 arginine finger; other site 204773002936 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 204773002937 seryl-tRNA synthetase; Provisional; Region: PRK05431 204773002938 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 204773002939 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 204773002940 dimer interface [polypeptide binding]; other site 204773002941 active site 204773002942 motif 1; other site 204773002943 motif 2; other site 204773002944 motif 3; other site 204773002945 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 204773002946 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 204773002947 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773002948 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773002949 metal binding site [ion binding]; metal-binding site 204773002950 active site 204773002951 I-site; other site 204773002952 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 204773002953 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 204773002954 Moco binding site; other site 204773002955 metal coordination site [ion binding]; other site 204773002956 Predicted membrane protein [Function unknown]; Region: COG3174 204773002957 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 204773002958 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 204773002959 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; cl00047 204773002960 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 204773002961 non-specific DNA interactions [nucleotide binding]; other site 204773002962 DNA binding site [nucleotide binding] 204773002963 sequence specific DNA binding site [nucleotide binding]; other site 204773002964 putative cAMP binding site [chemical binding]; other site 204773002965 2-isopropylmalate synthase; Validated; Region: PRK03739 204773002966 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 204773002967 active site 204773002968 catalytic residues [active] 204773002969 metal binding site [ion binding]; metal-binding site 204773002970 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 204773002971 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 204773002972 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 204773002973 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 204773002974 dimerization interface [polypeptide binding]; other site 204773002975 active site 204773002976 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 204773002977 homopentamer interface [polypeptide binding]; other site 204773002978 active site 204773002979 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 204773002980 putative RNA binding site [nucleotide binding]; other site 204773002981 aminotransferase; Validated; Region: PRK07337 204773002982 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 204773002983 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204773002984 homodimer interface [polypeptide binding]; other site 204773002985 catalytic residue [active] 204773002986 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 204773002987 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 204773002988 N-acetyl-D-glucosamine binding site [chemical binding]; other site 204773002989 catalytic residue [active] 204773002990 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 204773002991 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 204773002992 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 204773002993 HlyD family secretion protein; Region: HlyD_3; pfam13437 204773002994 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 204773002995 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 204773002996 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 204773002997 active site 204773002998 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14951 204773002999 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 204773003000 Walker A motif; other site 204773003001 ATP binding site [chemical binding]; other site 204773003002 Walker B motif; other site 204773003003 DNA polymerase III subunit delta'; Validated; Region: PRK08485 204773003004 arginine finger; other site 204773003005 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 204773003006 hypothetical protein; Validated; Region: PRK00153 204773003007 recombination protein RecR; Reviewed; Region: recR; PRK00076 204773003008 RecR protein; Region: RecR; pfam02132 204773003009 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 204773003010 putative active site [active] 204773003011 putative metal-binding site [ion binding]; other site 204773003012 tetramer interface [polypeptide binding]; other site 204773003013 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 204773003014 CoA-transferase family III; Region: CoA_transf_3; pfam02515 204773003015 Periplasmic lysozyme inhibitor, I-type (PliI) and similar proteins; Region: PliI_like; cd09632 204773003016 dimer interface [polypeptide binding]; other site 204773003017 putative inhibitory loop; other site 204773003018 Protein of unknown function, DUF488; Region: DUF488; cl01246 204773003019 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 204773003020 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_10; cd07251 204773003021 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 204773003022 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 204773003023 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 204773003024 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 204773003025 catalytic residue [active] 204773003026 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 204773003027 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 204773003028 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 204773003029 folate binding site [chemical binding]; other site 204773003030 NADP+ binding site [chemical binding]; other site 204773003031 thymidylate synthase; Provisional; Region: thyA; PRK13821 204773003032 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 204773003033 dimerization interface [polypeptide binding]; other site 204773003034 active site 204773003035 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 204773003036 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 204773003037 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204773003038 Walker A/P-loop; other site 204773003039 ATP binding site [chemical binding]; other site 204773003040 Q-loop/lid; other site 204773003041 ABC transporter signature motif; other site 204773003042 Walker B; other site 204773003043 D-loop; other site 204773003044 H-loop/switch region; other site 204773003045 Virus-capping methyltransferase; Region: Methyltrans_Mon; pfam14314 204773003046 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 204773003047 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 204773003048 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 204773003049 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 204773003050 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 204773003051 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 204773003052 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 204773003053 ligand binding site [chemical binding]; other site 204773003054 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 204773003055 glutamate--cysteine ligase; Provisional; Region: PRK02107 204773003056 hypothetical protein; Provisional; Region: PRK01254 204773003057 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 204773003058 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 204773003059 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 204773003060 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 204773003061 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 204773003062 RNA binding surface [nucleotide binding]; other site 204773003063 Pseudouridine synthase, a subgroup of the RsuA family; Region: PSSA_1; cd02555 204773003064 active site 204773003065 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 204773003066 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 204773003067 dimerization interface [polypeptide binding]; other site 204773003068 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 204773003069 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 204773003070 dimer interface [polypeptide binding]; other site 204773003071 putative CheW interface [polypeptide binding]; other site 204773003072 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 204773003073 S-formylglutathione hydrolase; Region: PLN02442 204773003074 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 204773003075 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 204773003076 substrate binding site [chemical binding]; other site 204773003077 catalytic Zn binding site [ion binding]; other site 204773003078 NAD binding site [chemical binding]; other site 204773003079 structural Zn binding site [ion binding]; other site 204773003080 dimer interface [polypeptide binding]; other site 204773003081 cell division topological specificity factor MinE; Provisional; Region: PRK13989 204773003082 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 204773003083 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 204773003084 Switch I; other site 204773003085 Switch II; other site 204773003086 Septum formation inhibitor [Cell division and chromosome partitioning]; Region: MinC; COG0850 204773003087 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 204773003088 recombination associated protein; Reviewed; Region: rdgC; PRK00321 204773003089 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 204773003090 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 204773003091 active site clefts [active] 204773003092 zinc binding site [ion binding]; other site 204773003093 dimer interface [polypeptide binding]; other site 204773003094 oxidative damage protection protein; Provisional; Region: PRK05408 204773003095 N-acetylglutamate synthase; Validated; Region: PRK05279 204773003096 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 204773003097 putative feedback inhibition sensing region; other site 204773003098 putative nucleotide binding site [chemical binding]; other site 204773003099 putative substrate binding site [chemical binding]; other site 204773003100 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 204773003101 Coenzyme A binding pocket [chemical binding]; other site 204773003102 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 204773003103 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 204773003104 ATP binding site [chemical binding]; other site 204773003105 putative Mg++ binding site [ion binding]; other site 204773003106 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 204773003107 nucleotide binding region [chemical binding]; other site 204773003108 ATP-binding site [chemical binding]; other site 204773003109 Helicase associated domain (HA2); Region: HA2; pfam04408 204773003110 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 204773003111 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 204773003112 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 204773003113 trimer interface [polypeptide binding]; other site 204773003114 active site 204773003115 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 204773003116 transaldolase-like protein; Provisional; Region: PTZ00411 204773003117 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 204773003118 active site 204773003119 dimer interface [polypeptide binding]; other site 204773003120 catalytic residue [active] 204773003121 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 204773003122 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 204773003123 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 204773003124 putative active site [active] 204773003125 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 204773003126 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 204773003127 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 204773003128 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 204773003129 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 204773003130 active site 204773003131 dimer interface [polypeptide binding]; other site 204773003132 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 204773003133 dimer interface [polypeptide binding]; other site 204773003134 active site 204773003135 phosphogluconate dehydratase; Validated; Region: PRK09054 204773003136 6-phosphogluconate dehydratase; Region: edd; TIGR01196 204773003137 Entner-Doudoroff aldolase; Region: eda; TIGR01182 204773003138 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 204773003139 active site 204773003140 intersubunit interface [polypeptide binding]; other site 204773003141 catalytic residue [active] 204773003142 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 204773003143 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 204773003144 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 204773003145 ABC transporter; Region: ABC_tran_2; pfam12848 204773003146 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 204773003147 quinolinate synthetase; Provisional; Region: PRK09375 204773003148 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 204773003149 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 204773003150 dimerization interface [polypeptide binding]; other site 204773003151 active site 204773003152 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 204773003153 tetramer (dimer of dimers) interface [polypeptide binding]; other site 204773003154 active site 204773003155 dimer interface [polypeptide binding]; other site 204773003156 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 204773003157 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 204773003158 putative active site [active] 204773003159 heme pocket [chemical binding]; other site 204773003160 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 204773003161 putative active site [active] 204773003162 heme pocket [chemical binding]; other site 204773003163 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773003164 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773003165 metal binding site [ion binding]; metal-binding site 204773003166 active site 204773003167 I-site; other site 204773003168 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 204773003169 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 204773003170 putative chaperone; Provisional; Region: PRK11678 204773003171 nucleotide binding site [chemical binding]; other site 204773003172 putative NEF/HSP70 interaction site [polypeptide binding]; other site 204773003173 SBD interface [polypeptide binding]; other site 204773003174 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 204773003175 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 204773003176 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 204773003177 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 204773003178 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 204773003179 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 204773003180 putative ligand binding site [chemical binding]; other site 204773003181 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 204773003182 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 204773003183 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 204773003184 putative active site [active] 204773003185 putative metal binding site [ion binding]; other site 204773003186 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 204773003187 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 204773003188 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 204773003189 active site 204773003190 homotetramer interface [polypeptide binding]; other site 204773003191 homodimer interface [polypeptide binding]; other site 204773003192 Protein of unknown function (DUF1059); Region: DUF1059; cl02284 204773003193 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 204773003194 catalytic core [active] 204773003195 polyphosphate kinase; Provisional; Region: PRK05443 204773003196 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 204773003197 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 204773003198 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 204773003199 putative domain interface [polypeptide binding]; other site 204773003200 putative active site [active] 204773003201 catalytic site [active] 204773003202 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 204773003203 putative domain interface [polypeptide binding]; other site 204773003204 putative active site [active] 204773003205 catalytic site [active] 204773003206 PBP superfamily domain; Region: PBP_like_2; cl17296 204773003207 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 204773003208 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 204773003209 dimer interface [polypeptide binding]; other site 204773003210 conserved gate region; other site 204773003211 putative PBP binding loops; other site 204773003212 ABC-ATPase subunit interface; other site 204773003213 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 204773003214 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 204773003215 dimer interface [polypeptide binding]; other site 204773003216 conserved gate region; other site 204773003217 putative PBP binding loops; other site 204773003218 ABC-ATPase subunit interface; other site 204773003219 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 204773003220 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 204773003221 Walker A/P-loop; other site 204773003222 ATP binding site [chemical binding]; other site 204773003223 Q-loop/lid; other site 204773003224 ABC transporter signature motif; other site 204773003225 Walker B; other site 204773003226 D-loop; other site 204773003227 H-loop/switch region; other site 204773003228 transcriptional regulator PhoU; Provisional; Region: PRK11115 204773003229 PhoU domain; Region: PhoU; pfam01895 204773003230 PhoU domain; Region: PhoU; pfam01895 204773003231 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 204773003232 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773003233 active site 204773003234 phosphorylation site [posttranslational modification] 204773003235 intermolecular recognition site; other site 204773003236 dimerization interface [polypeptide binding]; other site 204773003237 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 204773003238 DNA binding site [nucleotide binding] 204773003239 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 204773003240 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 204773003241 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 204773003242 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 204773003243 dimer interface [polypeptide binding]; other site 204773003244 phosphorylation site [posttranslational modification] 204773003245 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773003246 ATP binding site [chemical binding]; other site 204773003247 Mg2+ binding site [ion binding]; other site 204773003248 G-X-G motif; other site 204773003249 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 204773003250 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 204773003251 Cytochrome c; Region: Cytochrom_C; cl11414 204773003252 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 204773003253 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 204773003254 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 204773003255 Subunit I/III interface [polypeptide binding]; other site 204773003256 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_1; cd02864 204773003257 Subunit I/III interface [polypeptide binding]; other site 204773003258 Predicted small integral membrane protein [Function unknown]; Region: COG5605 204773003259 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 204773003260 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 204773003261 inhibitor-cofactor binding pocket; inhibition site 204773003262 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204773003263 catalytic residue [active] 204773003264 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 204773003265 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 204773003266 active site 204773003267 catalytic tetrad [active] 204773003268 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 204773003269 ligand binding site; other site 204773003270 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 204773003271 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 204773003272 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 204773003273 catalytic residue [active] 204773003274 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 204773003275 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 204773003276 Methyltransferase domain; Region: Methyltransf_31; pfam13847 204773003277 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 204773003278 S-adenosylmethionine binding site [chemical binding]; other site 204773003279 pseudaminic acid synthase; Region: PseI; TIGR03586 204773003280 NeuB family; Region: NeuB; pfam03102 204773003281 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 204773003282 NeuB binding interface [polypeptide binding]; other site 204773003283 putative substrate binding site [chemical binding]; other site 204773003284 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 204773003285 S-adenosylmethionine binding site [chemical binding]; other site 204773003286 putative transferase, LIC12162 family; Region: o_ant_LIC12162; TIGR04331 204773003287 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 204773003288 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 204773003289 Methyltransferase domain; Region: Methyltransf_23; pfam13489 204773003290 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 204773003291 S-adenosylmethionine binding site [chemical binding]; other site 204773003292 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 204773003293 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 204773003294 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 204773003295 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 204773003296 NAD(P) binding site [chemical binding]; other site 204773003297 active site 204773003298 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 204773003299 NAD(P) binding site [chemical binding]; other site 204773003300 active site 204773003301 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 204773003302 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 204773003303 substrate binding site; other site 204773003304 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 204773003305 extended (e) SDRs; Region: SDR_e; cd08946 204773003306 NAD(P) binding site [chemical binding]; other site 204773003307 active site 204773003308 substrate binding site [chemical binding]; other site 204773003309 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 204773003310 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 204773003311 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 204773003312 active site 204773003313 putative transposase OrfB; Reviewed; Region: PHA02517 204773003314 HTH-like domain; Region: HTH_21; pfam13276 204773003315 Integrase core domain; Region: rve; pfam00665 204773003316 Integrase core domain; Region: rve_3; pfam13683 204773003317 Transposase; Region: HTH_Tnp_1; pfam01527 204773003318 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 204773003319 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 204773003320 extended (e) SDRs; Region: SDR_e; cd08946 204773003321 NAD(P) binding site [chemical binding]; other site 204773003322 active site 204773003323 substrate binding site [chemical binding]; other site 204773003324 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 204773003325 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 204773003326 putative ADP-binding pocket [chemical binding]; other site 204773003327 putative glycosyl transferase; Provisional; Region: PRK10307 204773003328 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 204773003329 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 204773003330 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 204773003331 NADP binding site [chemical binding]; other site 204773003332 active site 204773003333 putative substrate binding site [chemical binding]; other site 204773003334 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 204773003335 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 204773003336 NAD(P) binding site [chemical binding]; other site 204773003337 homodimer interface [polypeptide binding]; other site 204773003338 substrate binding site [chemical binding]; other site 204773003339 active site 204773003340 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 204773003341 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 204773003342 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 204773003343 active site 204773003344 homodimer interface [polypeptide binding]; other site 204773003345 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 204773003346 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 204773003347 putative NAD(P) binding site [chemical binding]; other site 204773003348 active site 204773003349 putative substrate binding site [chemical binding]; other site 204773003350 Bacterial sugar transferase; Region: Bac_transf; pfam02397 204773003351 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 204773003352 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 204773003353 NAD(P) binding site [chemical binding]; other site 204773003354 homodimer interface [polypeptide binding]; other site 204773003355 substrate binding site [chemical binding]; other site 204773003356 active site 204773003357 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 204773003358 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 204773003359 NAD binding site [chemical binding]; other site 204773003360 substrate binding site [chemical binding]; other site 204773003361 homodimer interface [polypeptide binding]; other site 204773003362 active site 204773003363 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 204773003364 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 204773003365 substrate binding site; other site 204773003366 tetramer interface; other site 204773003367 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 204773003368 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 204773003369 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 204773003370 NADP binding site [chemical binding]; other site 204773003371 active site 204773003372 putative substrate binding site [chemical binding]; other site 204773003373 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 204773003374 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 204773003375 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 204773003376 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 204773003377 active site 204773003378 nucleophile elbow; other site 204773003379 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 204773003380 Transposase; Region: DEDD_Tnp_IS110; pfam01548 204773003381 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 204773003382 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 204773003383 NlpC/P60 family; Region: NLPC_P60; pfam00877 204773003384 Response regulator receiver domain; Region: Response_reg; pfam00072 204773003385 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773003386 active site 204773003387 phosphorylation site [posttranslational modification] 204773003388 intermolecular recognition site; other site 204773003389 dimerization interface [polypeptide binding]; other site 204773003390 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773003391 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773003392 I-site; other site 204773003393 active site 204773003394 metal binding site [ion binding]; metal-binding site 204773003395 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 204773003396 carbamoyl-phosphate synthase, small subunit; Region: CPSaseIIsmall; TIGR01368 204773003397 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 204773003398 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 204773003399 catalytic site [active] 204773003400 subunit interface [polypeptide binding]; other site 204773003401 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 204773003402 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 204773003403 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 204773003404 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 204773003405 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 204773003406 ATP-grasp domain; Region: ATP-grasp_4; cl17255 204773003407 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 204773003408 IMP binding site; other site 204773003409 dimer interface [polypeptide binding]; other site 204773003410 interdomain contacts; other site 204773003411 partial ornithine binding site; other site 204773003412 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 204773003413 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 204773003414 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 204773003415 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 204773003416 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 204773003417 FtsJ-like methyltransferase; Region: FtsJ; cl17430 204773003418 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 204773003419 FtsH Extracellular; Region: FtsH_ext; pfam06480 204773003420 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 204773003421 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 204773003422 Walker A motif; other site 204773003423 ATP binding site [chemical binding]; other site 204773003424 Walker B motif; other site 204773003425 arginine finger; other site 204773003426 Peptidase family M41; Region: Peptidase_M41; pfam01434 204773003427 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 204773003428 dihydropteroate synthase; Region: DHPS; TIGR01496 204773003429 substrate binding pocket [chemical binding]; other site 204773003430 dimer interface [polypeptide binding]; other site 204773003431 inhibitor binding site; inhibition site 204773003432 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 204773003433 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 204773003434 active site 204773003435 substrate binding site [chemical binding]; other site 204773003436 metal binding site [ion binding]; metal-binding site 204773003437 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 204773003438 nucleoside/Zn binding site; other site 204773003439 dimer interface [polypeptide binding]; other site 204773003440 catalytic motif [active] 204773003441 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 204773003442 Ligand binding site; other site 204773003443 metal-binding site 204773003444 Transcriptional regulator [Transcription]; Region: LysR; COG0583 204773003445 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204773003446 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 204773003447 putative effector binding pocket; other site 204773003448 dimerization interface [polypeptide binding]; other site 204773003449 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 204773003450 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 204773003451 catalytic loop [active] 204773003452 iron binding site [ion binding]; other site 204773003453 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 204773003454 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 204773003455 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 204773003456 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 204773003457 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 204773003458 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 204773003459 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 204773003460 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 204773003461 XdhC Rossmann domain; Region: XdhC_C; pfam13478 204773003462 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204773003463 DNA-binding site [nucleotide binding]; DNA binding site 204773003464 Transcriptional regulators [Transcription]; Region: GntR; COG1802 204773003465 FCD domain; Region: FCD; pfam07729 204773003466 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 204773003467 Domain of unknown function DUF302; Region: DUF302; pfam03625 204773003468 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 204773003469 DsrE/DsrF-like family; Region: DrsE; cl00672 204773003470 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 204773003471 dimerization interface [polypeptide binding]; other site 204773003472 putative DNA binding site [nucleotide binding]; other site 204773003473 putative Zn2+ binding site [ion binding]; other site 204773003474 bacterial SoxC is a member of the sulfite oxidase (SO) family of molybdopterin binding domains. SoxC is involved in oxidation of sulfur compounds during chemolithothrophic growth. Together with SoxD, a small c-type heme containing subunit, it forms a...; Region: bact_SoxC_Moco; cd02113 204773003475 Moco binding site; other site 204773003476 metal coordination site [ion binding]; other site 204773003477 dimerization interface [polypeptide binding]; other site 204773003478 Cytochrome c; Region: Cytochrom_C; pfam00034 204773003479 Cytochrome c; Region: Cytochrom_C; cl11414 204773003480 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 204773003481 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 204773003482 Predicted secreted protein [Function unknown]; Region: COG5501 204773003483 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 204773003484 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 204773003485 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 204773003486 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 204773003487 active site 204773003488 metal binding site [ion binding]; metal-binding site 204773003489 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 204773003490 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 204773003491 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 204773003492 active site residue [active] 204773003493 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 204773003494 Domain of unknown function (DUF336); Region: DUF336; pfam03928 204773003495 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 204773003496 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 204773003497 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 204773003498 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 204773003499 tetramer interface [polypeptide binding]; other site 204773003500 heme binding pocket [chemical binding]; other site 204773003501 NADPH binding site [chemical binding]; other site 204773003502 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 204773003503 FAD binding domain; Region: FAD_binding_4; pfam01565 204773003504 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 204773003505 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 204773003506 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 204773003507 Protein of unknown function (DUF962); Region: DUF962; pfam06127 204773003508 FOG: CBS domain [General function prediction only]; Region: COG0517 204773003509 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 204773003510 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 204773003511 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 204773003512 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 204773003513 putative active site [active] 204773003514 heme pocket [chemical binding]; other site 204773003515 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 204773003516 putative active site [active] 204773003517 heme pocket [chemical binding]; other site 204773003518 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 204773003519 PAS domain; Region: PAS_9; pfam13426 204773003520 putative active site [active] 204773003521 heme pocket [chemical binding]; other site 204773003522 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 204773003523 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 204773003524 dimer interface [polypeptide binding]; other site 204773003525 phosphorylation site [posttranslational modification] 204773003526 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773003527 ATP binding site [chemical binding]; other site 204773003528 Mg2+ binding site [ion binding]; other site 204773003529 G-X-G motif; other site 204773003530 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 204773003531 active site 204773003532 phosphorylation site [posttranslational modification] 204773003533 intermolecular recognition site; other site 204773003534 dimerization interface [polypeptide binding]; other site 204773003535 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 204773003536 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773003537 metal binding site [ion binding]; metal-binding site 204773003538 active site 204773003539 I-site; other site 204773003540 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 204773003541 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 204773003542 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 204773003543 Tetramer interface [polypeptide binding]; other site 204773003544 active site 204773003545 FMN-binding site [chemical binding]; other site 204773003546 Peptidase family M48; Region: Peptidase_M48; pfam01435 204773003547 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 204773003548 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 204773003549 substrate binding site [chemical binding]; other site 204773003550 ligand binding site [chemical binding]; other site 204773003551 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 204773003552 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 204773003553 substrate binding site [chemical binding]; other site 204773003554 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 204773003555 tartrate dehydrogenase; Region: TTC; TIGR02089 204773003556 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 204773003557 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 204773003558 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 204773003559 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 204773003560 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 204773003561 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 204773003562 dimerization interface 3.5A [polypeptide binding]; other site 204773003563 active site 204773003564 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 204773003565 active site 204773003566 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 204773003567 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 204773003568 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204773003569 catalytic residue [active] 204773003570 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 204773003571 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 204773003572 substrate binding site [chemical binding]; other site 204773003573 active site 204773003574 catalytic residues [active] 204773003575 heterodimer interface [polypeptide binding]; other site 204773003576 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 204773003577 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 204773003578 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 204773003579 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 204773003580 Sporulation related domain; Region: SPOR; pfam05036 204773003581 Colicin V production protein; Region: Colicin_V; pfam02674 204773003582 amidophosphoribosyltransferase; Provisional; Region: PRK09246 204773003583 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 204773003584 active site 204773003585 tetramer interface [polypeptide binding]; other site 204773003586 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 204773003587 active site 204773003588 hypothetical protein; Provisional; Region: PRK05939 204773003589 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 204773003590 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 204773003591 catalytic residue [active] 204773003592 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 204773003593 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 204773003594 RDD family; Region: RDD; pfam06271 204773003595 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 204773003596 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 204773003597 RNA polymerase factor sigma-70; Validated; Region: PRK09047 204773003598 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 204773003599 DNA binding residues [nucleotide binding] 204773003600 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 204773003601 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 204773003602 PYR/PP interface [polypeptide binding]; other site 204773003603 dimer interface [polypeptide binding]; other site 204773003604 TPP binding site [chemical binding]; other site 204773003605 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 204773003606 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 204773003607 TPP-binding site [chemical binding]; other site 204773003608 dimer interface [polypeptide binding]; other site 204773003609 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 204773003610 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 204773003611 putative valine binding site [chemical binding]; other site 204773003612 dimer interface [polypeptide binding]; other site 204773003613 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 204773003614 ketol-acid reductoisomerase; Provisional; Region: PRK05479 204773003615 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 204773003616 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 204773003617 Uncharacterized conserved protein [Function unknown]; Region: COG2968 204773003618 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 204773003619 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 204773003620 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 204773003621 2-isopropylmalate synthase; Validated; Region: PRK00915 204773003622 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 204773003623 active site 204773003624 catalytic residues [active] 204773003625 metal binding site [ion binding]; metal-binding site 204773003626 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 204773003627 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 204773003628 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 204773003629 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 204773003630 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773003631 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773003632 metal binding site [ion binding]; metal-binding site 204773003633 active site 204773003634 I-site; other site 204773003635 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 204773003636 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 204773003637 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 204773003638 dimerization interface [polypeptide binding]; other site 204773003639 PAS fold; Region: PAS; pfam00989 204773003640 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 204773003641 putative active site [active] 204773003642 heme pocket [chemical binding]; other site 204773003643 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773003644 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773003645 metal binding site [ion binding]; metal-binding site 204773003646 active site 204773003647 I-site; other site 204773003648 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 204773003649 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 204773003650 active site 204773003651 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 204773003652 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 204773003653 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 204773003654 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 204773003655 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 204773003656 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 204773003657 S-adenosylmethionine binding site [chemical binding]; other site 204773003658 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 204773003659 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 204773003660 Peptidase family M23; Region: Peptidase_M23; pfam01551 204773003661 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 204773003662 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 204773003663 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 204773003664 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 204773003665 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 204773003666 DNA binding residues [nucleotide binding] 204773003667 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 204773003668 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 204773003669 S-adenosylmethionine binding site [chemical binding]; other site 204773003670 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 204773003671 YccA-like proteins; Region: YccA_like; cd10433 204773003672 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 204773003673 active site 204773003674 multimer interface [polypeptide binding]; other site 204773003675 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 204773003676 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 204773003677 FeS/SAM binding site; other site 204773003678 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 204773003679 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 204773003680 binding surface 204773003681 TPR motif; other site 204773003682 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 204773003683 binding surface 204773003684 TPR motif; other site 204773003685 Helix-turn-helix domain; Region: HTH_25; pfam13413 204773003686 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 204773003687 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 204773003688 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 204773003689 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 204773003690 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 204773003691 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 204773003692 dimer interface [polypeptide binding]; other site 204773003693 motif 1; other site 204773003694 active site 204773003695 motif 2; other site 204773003696 motif 3; other site 204773003697 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 204773003698 anticodon binding site; other site 204773003699 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 204773003700 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 204773003701 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 204773003702 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 204773003703 Trp docking motif [polypeptide binding]; other site 204773003704 active site 204773003705 GTP-binding protein Der; Reviewed; Region: PRK00093 204773003706 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 204773003707 G1 box; other site 204773003708 GTP/Mg2+ binding site [chemical binding]; other site 204773003709 Switch I region; other site 204773003710 G2 box; other site 204773003711 Switch II region; other site 204773003712 G3 box; other site 204773003713 G4 box; other site 204773003714 G5 box; other site 204773003715 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 204773003716 G1 box; other site 204773003717 GTP/Mg2+ binding site [chemical binding]; other site 204773003718 Switch I region; other site 204773003719 G2 box; other site 204773003720 G3 box; other site 204773003721 Switch II region; other site 204773003722 G4 box; other site 204773003723 G5 box; other site 204773003724 bacterial Hfq-like; Region: Hfq; cd01716 204773003725 hexamer interface [polypeptide binding]; other site 204773003726 Sm1 motif; other site 204773003727 RNA binding site [nucleotide binding]; other site 204773003728 Sm2 motif; other site 204773003729 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 204773003730 HflX GTPase family; Region: HflX; cd01878 204773003731 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 204773003732 G1 box; other site 204773003733 GTP/Mg2+ binding site [chemical binding]; other site 204773003734 Switch I region; other site 204773003735 G2 box; other site 204773003736 G3 box; other site 204773003737 Switch II region; other site 204773003738 G4 box; other site 204773003739 G5 box; other site 204773003740 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 204773003741 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 204773003742 HflK protein; Region: hflK; TIGR01933 204773003743 HflC protein; Region: hflC; TIGR01932 204773003744 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 204773003745 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 204773003746 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 204773003747 dimer interface [polypeptide binding]; other site 204773003748 motif 1; other site 204773003749 active site 204773003750 motif 2; other site 204773003751 motif 3; other site 204773003752 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 204773003753 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 204773003754 GDP-binding site [chemical binding]; other site 204773003755 ACT binding site; other site 204773003756 IMP binding site; other site 204773003757 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 204773003758 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 204773003759 active site 204773003760 ribonuclease R; Region: RNase_R; TIGR02063 204773003761 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 204773003762 RNB domain; Region: RNB; pfam00773 204773003763 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 204773003764 RNA binding site [nucleotide binding]; other site 204773003765 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 204773003766 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 204773003767 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 204773003768 serine O-acetyltransferase; Region: cysE; TIGR01172 204773003769 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 204773003770 trimer interface [polypeptide binding]; other site 204773003771 active site 204773003772 substrate binding site [chemical binding]; other site 204773003773 CoA binding site [chemical binding]; other site 204773003774 Protein of unknown function, DUF480; Region: DUF480; pfam04337 204773003775 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 204773003776 putative active site [active] 204773003777 putative metal binding site [ion binding]; other site 204773003778 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 204773003779 substrate binding site [chemical binding]; other site 204773003780 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 204773003781 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 204773003782 substrate binding site [chemical binding]; other site 204773003783 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 204773003784 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 204773003785 active site 204773003786 HIGH motif; other site 204773003787 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 204773003788 KMSKS motif; other site 204773003789 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 204773003790 tRNA binding surface [nucleotide binding]; other site 204773003791 anticodon binding site; other site 204773003792 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 204773003793 endonuclease III; Region: ENDO3c; smart00478 204773003794 minor groove reading motif; other site 204773003795 helix-hairpin-helix signature motif; other site 204773003796 substrate binding pocket [chemical binding]; other site 204773003797 active site 204773003798 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 204773003799 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 204773003800 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 204773003801 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 204773003802 Ligand Binding Site [chemical binding]; other site 204773003803 TilS substrate binding domain; Region: TilS; pfam09179 204773003804 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 204773003805 aspartate kinase; Reviewed; Region: PRK06635 204773003806 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 204773003807 putative nucleotide binding site [chemical binding]; other site 204773003808 putative catalytic residues [active] 204773003809 putative Mg ion binding site [ion binding]; other site 204773003810 putative aspartate binding site [chemical binding]; other site 204773003811 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 204773003812 putative allosteric regulatory site; other site 204773003813 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 204773003814 transcriptional activator FlhD; Provisional; Region: PRK02909 204773003815 transcriptional activator FlhC; Provisional; Region: PRK12722 204773003816 Methyltransferase domain; Region: Methyltransf_18; pfam12847 204773003817 flagellar motor protein MotA; Validated; Region: PRK09110 204773003818 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 204773003819 flagellar motor protein MotB; Validated; Region: motB; PRK09041 204773003820 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 204773003821 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 204773003822 ligand binding site [chemical binding]; other site 204773003823 Response regulator receiver domain; Region: Response_reg; pfam00072 204773003824 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773003825 active site 204773003826 phosphorylation site [posttranslational modification] 204773003827 intermolecular recognition site; other site 204773003828 dimerization interface [polypeptide binding]; other site 204773003829 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 204773003830 putative binding surface; other site 204773003831 active site 204773003832 CheY binding; Region: CheY-binding; pfam09078 204773003833 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 204773003834 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773003835 ATP binding site [chemical binding]; other site 204773003836 Mg2+ binding site [ion binding]; other site 204773003837 G-X-G motif; other site 204773003838 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 204773003839 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 204773003840 putative CheA interaction surface; other site 204773003841 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 204773003842 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 204773003843 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 204773003844 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13487 204773003845 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 204773003846 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773003847 active site 204773003848 phosphorylation site [posttranslational modification] 204773003849 intermolecular recognition site; other site 204773003850 dimerization interface [polypeptide binding]; other site 204773003851 CheB methylesterase; Region: CheB_methylest; pfam01339 204773003852 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 204773003853 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773003854 active site 204773003855 phosphorylation site [posttranslational modification] 204773003856 intermolecular recognition site; other site 204773003857 dimerization interface [polypeptide binding]; other site 204773003858 chemotaxis regulator CheZ; Provisional; Region: PRK11166 204773003859 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 204773003860 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 204773003861 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 204773003862 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 204773003863 FHIPEP family; Region: FHIPEP; pfam00771 204773003864 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14721 204773003865 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 204773003866 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 204773003867 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 204773003868 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 204773003869 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 204773003870 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 204773003871 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 204773003872 DNA binding residues [nucleotide binding] 204773003873 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 204773003874 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 204773003875 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 204773003876 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 204773003877 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 204773003878 ligand binding site [chemical binding]; other site 204773003879 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 204773003880 Uncharacterized conserved protein [Function unknown]; Region: COG5495 204773003881 Rossmann-like domain; Region: Rossmann-like; pfam10727 204773003882 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 204773003883 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 204773003884 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 204773003885 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 204773003886 ABC transporter; Region: ABC_tran_2; pfam12848 204773003887 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 204773003888 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 204773003889 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 204773003890 S-adenosylmethionine binding site [chemical binding]; other site 204773003891 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 204773003892 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 204773003893 metal binding site [ion binding]; metal-binding site 204773003894 dimer interface [polypeptide binding]; other site 204773003895 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 204773003896 ArsC family; Region: ArsC; pfam03960 204773003897 putative catalytic residues [active] 204773003898 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 204773003899 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 204773003900 ATP binding site [chemical binding]; other site 204773003901 Walker B motif; other site 204773003902 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 204773003903 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 204773003904 trimer interface [polypeptide binding]; other site 204773003905 active site 204773003906 substrate binding site [chemical binding]; other site 204773003907 CoA binding site [chemical binding]; other site 204773003908 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 204773003909 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204773003910 homodimer interface [polypeptide binding]; other site 204773003911 catalytic residue [active] 204773003912 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 204773003913 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204773003914 Q-loop/lid; other site 204773003915 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 204773003916 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 204773003917 ABC transporter signature motif; other site 204773003918 Walker B; other site 204773003919 D-loop; other site 204773003920 H-loop/switch region; other site 204773003921 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 204773003922 FtsZ protein binding site [polypeptide binding]; other site 204773003923 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 204773003924 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 204773003925 nucleotide binding pocket [chemical binding]; other site 204773003926 K-X-D-G motif; other site 204773003927 catalytic site [active] 204773003928 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 204773003929 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 204773003930 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 204773003931 Dimer interface [polypeptide binding]; other site 204773003932 BRCT sequence motif; other site 204773003933 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 204773003934 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 204773003935 active site 204773003936 tetramer interface; other site 204773003937 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 204773003938 active site 204773003939 catalytic residues [active] 204773003940 metal binding site [ion binding]; metal-binding site 204773003941 GAF domain; Region: GAF_2; pfam13185 204773003942 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 204773003943 GAF domain; Region: GAF; pfam01590 204773003944 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 204773003945 PAS domain; Region: PAS_9; pfam13426 204773003946 putative active site [active] 204773003947 heme pocket [chemical binding]; other site 204773003948 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773003949 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773003950 metal binding site [ion binding]; metal-binding site 204773003951 active site 204773003952 I-site; other site 204773003953 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 204773003954 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 204773003955 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 204773003956 RNA binding surface [nucleotide binding]; other site 204773003957 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 204773003958 active site 204773003959 PII uridylyl-transferase; Provisional; Region: PRK03059 204773003960 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 204773003961 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 204773003962 Zn2+ binding site [ion binding]; other site 204773003963 Mg2+ binding site [ion binding]; other site 204773003964 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 204773003965 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 204773003966 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 204773003967 active site 204773003968 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 204773003969 rRNA interaction site [nucleotide binding]; other site 204773003970 S8 interaction site; other site 204773003971 putative laminin-1 binding site; other site 204773003972 elongation factor Ts; Provisional; Region: tsf; PRK09377 204773003973 UBA/TS-N domain; Region: UBA; pfam00627 204773003974 Elongation factor TS; Region: EF_TS; pfam00889 204773003975 Elongation factor TS; Region: EF_TS; pfam00889 204773003976 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 204773003977 putative nucleotide binding site [chemical binding]; other site 204773003978 uridine monophosphate binding site [chemical binding]; other site 204773003979 homohexameric interface [polypeptide binding]; other site 204773003980 ribosome recycling factor; Reviewed; Region: frr; PRK00083 204773003981 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 204773003982 hinge region; other site 204773003983 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 204773003984 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 204773003985 catalytic residue [active] 204773003986 putative FPP diphosphate binding site; other site 204773003987 putative FPP binding hydrophobic cleft; other site 204773003988 dimer interface [polypeptide binding]; other site 204773003989 putative IPP diphosphate binding site; other site 204773003990 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 204773003991 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 204773003992 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 204773003993 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 204773003994 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 204773003995 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 204773003996 zinc metallopeptidase RseP; Provisional; Region: PRK10779 204773003997 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 204773003998 active site 204773003999 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 204773004000 protein binding site [polypeptide binding]; other site 204773004001 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 204773004002 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 204773004003 putative substrate binding region [chemical binding]; other site 204773004004 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 204773004005 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 204773004006 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 204773004007 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 204773004008 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 204773004009 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 204773004010 Surface antigen; Region: Bac_surface_Ag; pfam01103 204773004011 periplasmic chaperone; Provisional; Region: PRK10780 204773004012 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 204773004013 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 204773004014 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 204773004015 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 204773004016 trimer interface [polypeptide binding]; other site 204773004017 active site 204773004018 UDP-GlcNAc binding site [chemical binding]; other site 204773004019 lipid binding site [chemical binding]; lipid-binding site 204773004020 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 204773004021 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 204773004022 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 204773004023 active site 204773004024 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 204773004025 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 204773004026 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 204773004027 RNA/DNA hybrid binding site [nucleotide binding]; other site 204773004028 active site 204773004029 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 204773004030 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 204773004031 PEP synthetase regulatory protein; Provisional; Region: PRK05339 204773004032 phosphoenolpyruvate synthase; Validated; Region: PRK06464 204773004033 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 204773004034 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 204773004035 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 204773004036 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 204773004037 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 204773004038 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 204773004039 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 204773004040 SmpB-tmRNA interface; other site 204773004041 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 204773004042 putative coenzyme Q binding site [chemical binding]; other site 204773004043 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 204773004044 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 204773004045 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 204773004046 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 204773004047 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 204773004048 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 204773004049 active site 204773004050 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]; Region: COG1747 204773004051 GMP synthase; Reviewed; Region: guaA; PRK00074 204773004052 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 204773004053 AMP/PPi binding site [chemical binding]; other site 204773004054 candidate oxyanion hole; other site 204773004055 catalytic triad [active] 204773004056 potential glutamine specificity residues [chemical binding]; other site 204773004057 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 204773004058 ATP Binding subdomain [chemical binding]; other site 204773004059 Ligand Binding sites [chemical binding]; other site 204773004060 Dimerization subdomain; other site 204773004061 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 204773004062 GAF domain; Region: GAF; pfam01590 204773004063 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 204773004064 Walker A motif; other site 204773004065 ATP binding site [chemical binding]; other site 204773004066 Walker B motif; other site 204773004067 arginine finger; other site 204773004068 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 204773004069 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 204773004070 Hemerythrin-like domain; Region: Hr-like; cd12108 204773004071 Fe binding site [ion binding]; other site 204773004072 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 204773004073 azurin; Region: azurin; TIGR02695 204773004074 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 204773004075 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 204773004076 N-terminal plug; other site 204773004077 ligand-binding site [chemical binding]; other site 204773004078 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 204773004079 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 204773004080 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 204773004081 apolar tunnel; other site 204773004082 heme binding site [chemical binding]; other site 204773004083 dimerization interface [polypeptide binding]; other site 204773004084 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 204773004085 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 204773004086 Walker A/P-loop; other site 204773004087 ATP binding site [chemical binding]; other site 204773004088 Q-loop/lid; other site 204773004089 ABC transporter signature motif; other site 204773004090 Walker B; other site 204773004091 D-loop; other site 204773004092 H-loop/switch region; other site 204773004093 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 204773004094 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204773004095 Walker A/P-loop; other site 204773004096 ATP binding site [chemical binding]; other site 204773004097 Q-loop/lid; other site 204773004098 ABC transporter signature motif; other site 204773004099 Walker B; other site 204773004100 D-loop; other site 204773004101 H-loop/switch region; other site 204773004102 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 204773004103 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 204773004104 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 204773004105 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 204773004106 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 204773004107 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 204773004108 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 204773004109 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 204773004110 FeS/SAM binding site; other site 204773004111 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 204773004112 active site 204773004113 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 204773004114 nucleoside/Zn binding site; other site 204773004115 dimer interface [polypeptide binding]; other site 204773004116 catalytic motif [active] 204773004117 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 204773004118 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 204773004119 TAP-like protein; Region: Abhydrolase_4; pfam08386 204773004120 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 204773004121 dimer interface [polypeptide binding]; other site 204773004122 catalytic triad [active] 204773004123 L-aspartate oxidase; Provisional; Region: PRK09077 204773004124 L-aspartate oxidase; Provisional; Region: PRK06175 204773004125 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 204773004126 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 204773004127 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 204773004128 PAS domain S-box; Region: sensory_box; TIGR00229 204773004129 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 204773004130 putative active site [active] 204773004131 heme pocket [chemical binding]; other site 204773004132 PAS domain S-box; Region: sensory_box; TIGR00229 204773004133 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 204773004134 putative active site [active] 204773004135 heme pocket [chemical binding]; other site 204773004136 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773004137 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773004138 metal binding site [ion binding]; metal-binding site 204773004139 active site 204773004140 I-site; other site 204773004141 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 204773004142 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 204773004143 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 204773004144 ATP-grasp domain; Region: ATP-grasp; pfam02222 204773004145 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 204773004146 putative substrate translocation pore; other site 204773004147 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 204773004148 CoenzymeA binding site [chemical binding]; other site 204773004149 subunit interaction site [polypeptide binding]; other site 204773004150 PHB binding site; other site 204773004151 NRDE protein; Region: NRDE; pfam05742 204773004152 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 204773004153 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 204773004154 YceG-like family; Region: YceG; pfam02618 204773004155 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 204773004156 dimerization interface [polypeptide binding]; other site 204773004157 thymidylate kinase; Validated; Region: tmk; PRK00698 204773004158 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 204773004159 TMP-binding site; other site 204773004160 ATP-binding site [chemical binding]; other site 204773004161 DNA polymerase III subunit delta'; Validated; Region: PRK06964 204773004162 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 204773004163 Walker A motif; other site 204773004164 ATP binding site [chemical binding]; other site 204773004165 DNA polymerase III subunit delta'; Validated; Region: PRK08485 204773004166 PilZ domain; Region: PilZ; cl01260 204773004167 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 204773004168 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 204773004169 Coenzyme A binding pocket [chemical binding]; other site 204773004170 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 204773004171 active site 204773004172 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 204773004173 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 204773004174 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 204773004175 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 204773004176 HDOD domain; Region: HDOD; pfam08668 204773004177 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 204773004178 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 204773004179 dimer interface [polypeptide binding]; other site 204773004180 putative functional site; other site 204773004181 putative MPT binding site; other site 204773004182 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 204773004183 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 204773004184 GTP binding site; other site 204773004185 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 204773004186 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 204773004187 FeS/SAM binding site; other site 204773004188 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 204773004189 Domain of unknown function DUF59; Region: DUF59; pfam01883 204773004190 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 204773004191 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 204773004192 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 204773004193 4Fe-4S binding domain; Region: Fer4; pfam00037 204773004194 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 204773004195 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 204773004196 4Fe-4S binding domain; Region: Fer4_6; pfam12837 204773004197 Ferredoxin [Energy production and conversion]; Region: COG1146 204773004198 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 204773004199 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 204773004200 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 204773004201 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 204773004202 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 204773004203 [4Fe-4S] binding site [ion binding]; other site 204773004204 molybdopterin cofactor binding site; other site 204773004205 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 204773004206 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 204773004207 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 204773004208 molybdopterin cofactor binding site; other site 204773004209 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 204773004210 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 204773004211 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 204773004212 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 204773004213 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 204773004214 dimer interface [polypeptide binding]; other site 204773004215 conserved gate region; other site 204773004216 putative PBP binding loops; other site 204773004217 ABC-ATPase subunit interface; other site 204773004218 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 204773004219 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 204773004220 Walker A/P-loop; other site 204773004221 ATP binding site [chemical binding]; other site 204773004222 Q-loop/lid; other site 204773004223 ABC transporter signature motif; other site 204773004224 Walker B; other site 204773004225 D-loop; other site 204773004226 H-loop/switch region; other site 204773004227 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 204773004228 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773004229 ATP binding site [chemical binding]; other site 204773004230 Mg2+ binding site [ion binding]; other site 204773004231 G-X-G motif; other site 204773004232 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 204773004233 binding surface 204773004234 TPR motif; other site 204773004235 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 204773004236 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 204773004237 MarR family; Region: MarR_2; pfam12802 204773004238 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 204773004239 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 204773004240 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 204773004241 dimerization interface [polypeptide binding]; other site 204773004242 putative DNA binding site [nucleotide binding]; other site 204773004243 putative Zn2+ binding site [ion binding]; other site 204773004244 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 204773004245 putative substrate translocation pore; other site 204773004246 Major Facilitator Superfamily; Region: MFS_1; pfam07690 204773004247 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 204773004248 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 204773004249 FMN binding site [chemical binding]; other site 204773004250 active site 204773004251 substrate binding site [chemical binding]; other site 204773004252 catalytic residue [active] 204773004253 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 204773004254 Predicted acetyltransferase [General function prediction only]; Region: COG2388 204773004255 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 204773004256 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 204773004257 ABC-2 type transporter; Region: ABC2_membrane; cl17235 204773004258 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 204773004259 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 204773004260 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 204773004261 Walker A/P-loop; other site 204773004262 ATP binding site [chemical binding]; other site 204773004263 Q-loop/lid; other site 204773004264 ABC transporter signature motif; other site 204773004265 Walker B; other site 204773004266 D-loop; other site 204773004267 H-loop/switch region; other site 204773004268 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 204773004269 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 204773004270 EamA-like transporter family; Region: EamA; pfam00892 204773004271 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 204773004272 EamA-like transporter family; Region: EamA; pfam00892 204773004273 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 204773004274 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 204773004275 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 204773004276 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 204773004277 HSP70 interaction site [polypeptide binding]; other site 204773004278 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 204773004279 substrate binding site [polypeptide binding]; other site 204773004280 dimer interface [polypeptide binding]; other site 204773004281 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 204773004282 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 204773004283 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 204773004284 FMN binding site [chemical binding]; other site 204773004285 substrate binding site [chemical binding]; other site 204773004286 putative catalytic residue [active] 204773004287 AsmA family; Region: AsmA; pfam05170 204773004288 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 204773004289 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 204773004290 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 204773004291 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 204773004292 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 204773004293 active site residue [active] 204773004294 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 204773004295 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 204773004296 Putative regulatory protein; Region: CxxC_CXXC_SSSS; smart00834 204773004297 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 204773004298 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 204773004299 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 204773004300 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 204773004301 dimer interface [polypeptide binding]; other site 204773004302 phosphorylation site [posttranslational modification] 204773004303 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773004304 ATP binding site [chemical binding]; other site 204773004305 Mg2+ binding site [ion binding]; other site 204773004306 G-X-G motif; other site 204773004307 Response regulator receiver domain; Region: Response_reg; pfam00072 204773004308 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773004309 active site 204773004310 phosphorylation site [posttranslational modification] 204773004311 intermolecular recognition site; other site 204773004312 dimerization interface [polypeptide binding]; other site 204773004313 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 204773004314 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773004315 active site 204773004316 phosphorylation site [posttranslational modification] 204773004317 intermolecular recognition site; other site 204773004318 dimerization interface [polypeptide binding]; other site 204773004319 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 204773004320 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 204773004321 DNA binding residues [nucleotide binding] 204773004322 dimerization interface [polypeptide binding]; other site 204773004323 Uncharacterized conserved protein, YhbC family [Function unknown]; Region: COG0782 204773004324 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 204773004325 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 204773004326 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 204773004327 SmpB-tmRNA interface; other site 204773004328 Methyltransferase domain; Region: Methyltransf_31; pfam13847 204773004329 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 204773004330 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 204773004331 Major Facilitator Superfamily; Region: MFS_1; pfam07690 204773004332 putative substrate translocation pore; other site 204773004333 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 204773004334 Transcriptional regulator [Transcription]; Region: LysR; COG0583 204773004335 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204773004336 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 204773004337 putative dimerization interface [polypeptide binding]; other site 204773004338 Transcriptional regulators [Transcription]; Region: GntR; COG1802 204773004339 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204773004340 DNA-binding site [nucleotide binding]; DNA binding site 204773004341 FCD domain; Region: FCD; pfam07729 204773004342 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 204773004343 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 204773004344 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 204773004345 DctM-like transporters; Region: DctM; pfam06808 204773004346 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 204773004347 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 204773004348 Coenzyme A transferase; Region: CoA_trans; cl17247 204773004349 malonate decarboxylase subunit delta; Provisional; Region: PRK02103 204773004350 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 204773004351 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 204773004352 malonate decarboxylase holo-[acyl-carrier-protein] synthase; Region: malonate_mdcG; TIGR03135 204773004353 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 204773004354 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; pfam01874 204773004355 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 204773004356 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 204773004357 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 204773004358 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 204773004359 putative active site [active] 204773004360 putative metal binding site [ion binding]; other site 204773004361 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 204773004362 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 204773004363 DTW domain; Region: DTW; cl01221 204773004364 GTP cyclohydrolase I; Provisional; Region: PLN03044 204773004365 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 204773004366 active site 204773004367 Cytochrome c2 [Energy production and conversion]; Region: COG3474 204773004368 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 204773004369 dinuclear metal binding motif [ion binding]; other site 204773004370 RNA polymerase sigma factor; Provisional; Region: PRK11922 204773004371 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 204773004372 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 204773004373 DNA binding residues [nucleotide binding] 204773004374 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 204773004375 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 204773004376 putative substrate translocation pore; other site 204773004377 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 204773004378 dimer interface [polypeptide binding]; other site 204773004379 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 204773004380 Beta-lactamase; Region: Beta-lactamase; pfam00144 204773004381 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 204773004382 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 204773004383 putative dimer interface [polypeptide binding]; other site 204773004384 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 204773004385 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 204773004386 Predicted flavoprotein [General function prediction only]; Region: COG0431 204773004387 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 204773004388 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 204773004389 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 204773004390 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 204773004391 G1 box; other site 204773004392 GTP/Mg2+ binding site [chemical binding]; other site 204773004393 Switch I region; other site 204773004394 G2 box; other site 204773004395 G3 box; other site 204773004396 Switch II region; other site 204773004397 G4 box; other site 204773004398 G5 box; other site 204773004399 Nucleoside recognition; Region: Gate; pfam07670 204773004400 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 204773004401 Nucleoside recognition; Region: Gate; pfam07670 204773004402 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 204773004403 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 204773004404 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 204773004405 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 204773004406 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 204773004407 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 204773004408 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 204773004409 dimerization interface [polypeptide binding]; other site 204773004410 DPS ferroxidase diiron center [ion binding]; other site 204773004411 ion pore; other site 204773004412 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 204773004413 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 204773004414 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 204773004415 Beta-Casp domain; Region: Beta-Casp; smart01027 204773004416 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 204773004417 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 204773004418 Ligand Binding Site [chemical binding]; other site 204773004419 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 204773004420 Ligand Binding Site [chemical binding]; other site 204773004421 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 204773004422 Ligand Binding Site [chemical binding]; other site 204773004423 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 204773004424 propionate/acetate kinase; Provisional; Region: PRK12379 204773004425 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 204773004426 (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 204773004427 dimer interaction site [polypeptide binding]; other site 204773004428 substrate-binding tunnel; other site 204773004429 active site 204773004430 catalytic site [active] 204773004431 substrate binding site [chemical binding]; other site 204773004432 phosphate acetyltransferase; Provisional; Region: PRK11890 204773004433 Urea transporter; Region: UT; pfam03253 204773004434 hypothetical protein; Region: PHA01083 204773004435 Helix-destabilising protein; Region: Phage_DNA_bind; pfam02303 204773004436 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 204773004437 Phage replication protein CRI; Region: Phage_CRI; pfam05144 204773004438 phage/plasmid replication protein, gene II/X family; Region: rep_II_X; TIGR01629 204773004439 Phage X family; Region: Phage_X; cl11585 204773004440 Zonular occludens toxin (Zot); Region: Zot; cl17485 204773004441 TIR domain; Region: TIR_2; pfam13676 204773004442 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 204773004443 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 204773004444 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 204773004445 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 204773004446 DNA binding site [nucleotide binding] 204773004447 dimer interface [polypeptide binding]; other site 204773004448 active site 204773004449 Int/Topo IB signature motif; other site 204773004450 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 204773004451 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 204773004452 DNA binding residues [nucleotide binding] 204773004453 dimer interface [polypeptide binding]; other site 204773004454 putative metal binding site [ion binding]; other site 204773004455 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 204773004456 metal-binding site [ion binding] 204773004457 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 204773004458 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 204773004459 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 204773004460 Soluble P-type ATPase [General function prediction only]; Region: COG4087 204773004461 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 204773004462 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 204773004463 active site 204773004464 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 204773004465 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 204773004466 lipoprotein signal peptidase; Provisional; Region: PRK14787 204773004467 Cytochrome c; Region: Cytochrom_C; pfam00034 204773004468 Iron permease FTR1 family; Region: FTR1; cl00475 204773004469 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 204773004470 CopC domain; Region: CopC; pfam04234 204773004471 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 204773004472 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 204773004473 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 204773004474 Multicopper oxidase; Region: Cu-oxidase; pfam00394 204773004475 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 204773004476 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 204773004477 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773004478 active site 204773004479 phosphorylation site [posttranslational modification] 204773004480 intermolecular recognition site; other site 204773004481 dimerization interface [polypeptide binding]; other site 204773004482 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 204773004483 DNA binding site [nucleotide binding] 204773004484 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 204773004485 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 204773004486 dimerization interface [polypeptide binding]; other site 204773004487 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 204773004488 dimer interface [polypeptide binding]; other site 204773004489 phosphorylation site [posttranslational modification] 204773004490 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773004491 ATP binding site [chemical binding]; other site 204773004492 Mg2+ binding site [ion binding]; other site 204773004493 G-X-G motif; other site 204773004494 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 204773004495 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 204773004496 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 204773004497 HlyD family secretion protein; Region: HlyD_3; pfam13437 204773004498 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 204773004499 Outer membrane efflux protein; Region: OEP; pfam02321 204773004500 Outer membrane efflux protein; Region: OEP; pfam02321 204773004501 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 204773004502 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 204773004503 ATP-grasp domain; Region: ATP-grasp_4; cl17255 204773004504 YHS domain; Region: YHS; pfam04945 204773004505 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 204773004506 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 204773004507 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 204773004508 motif II; other site 204773004509 HipA N-terminal domain; Region: Couple_hipA; pfam13657 204773004510 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 204773004511 HipA-like N-terminal domain; Region: HipA_N; pfam07805 204773004512 HipA-like C-terminal domain; Region: HipA_C; pfam07804 204773004513 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 204773004514 non-specific DNA binding site [nucleotide binding]; other site 204773004515 salt bridge; other site 204773004516 sequence-specific DNA binding site [nucleotide binding]; other site 204773004517 AAA domain; Region: AAA_22; pfam13401 204773004518 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 204773004519 putative transposase OrfB; Reviewed; Region: PHA02517 204773004520 HTH-like domain; Region: HTH_21; pfam13276 204773004521 Integrase core domain; Region: rve; pfam00665 204773004522 Integrase core domain; Region: rve_3; pfam13683 204773004523 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 204773004524 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 204773004525 active site 204773004526 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 204773004527 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 204773004528 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 204773004529 Ligand Binding Site [chemical binding]; other site 204773004530 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 204773004531 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 204773004532 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 204773004533 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 204773004534 motif II; other site 204773004535 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 204773004536 Outer membrane efflux protein; Region: OEP; pfam02321 204773004537 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 204773004538 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 204773004539 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 204773004540 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 204773004541 Predicted metal-binding protein [General function prediction only]; Region: COG3019 204773004542 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 204773004543 YHS domain; Region: YHS; pfam04945 204773004544 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 204773004545 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 204773004546 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 204773004547 DNA binding site [nucleotide binding] 204773004548 dimer interface [polypeptide binding]; other site 204773004549 active site 204773004550 Int/Topo IB signature motif; other site 204773004551 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 204773004552 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 204773004553 DNA binding residues [nucleotide binding] 204773004554 dimer interface [polypeptide binding]; other site 204773004555 putative metal binding site [ion binding]; other site 204773004556 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 204773004557 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 204773004558 Soluble P-type ATPase [General function prediction only]; Region: COG4087 204773004559 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 204773004560 Sodium Bile acid symporter family; Region: SBF; cl17470 204773004561 Cytochrome c; Region: Cytochrom_C; pfam00034 204773004562 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 204773004563 Outer membrane efflux protein; Region: OEP; pfam02321 204773004564 Outer membrane efflux protein; Region: OEP; pfam02321 204773004565 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 204773004566 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 204773004567 HlyD family secretion protein; Region: HlyD_3; pfam13437 204773004568 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 204773004569 Nitrogen regulatory protein P-II; Region: P-II; smart00938 204773004570 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 204773004571 MgtC family; Region: MgtC; pfam02308 204773004572 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 204773004573 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 204773004574 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 204773004575 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 204773004576 Ligand binding site; other site 204773004577 Putative Catalytic site; other site 204773004578 DXD motif; other site 204773004579 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 204773004580 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 204773004581 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 204773004582 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 204773004583 putative NAD(P) binding site [chemical binding]; other site 204773004584 putative substrate binding site [chemical binding]; other site 204773004585 catalytic Zn binding site [ion binding]; other site 204773004586 structural Zn binding site [ion binding]; other site 204773004587 dimer interface [polypeptide binding]; other site 204773004588 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 204773004589 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 204773004590 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 204773004591 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 204773004592 HlyD family secretion protein; Region: HlyD_3; pfam13437 204773004593 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 204773004594 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 204773004595 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 204773004596 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 204773004597 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 204773004598 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 204773004599 DNA binding residues [nucleotide binding] 204773004600 dimer interface [polypeptide binding]; other site 204773004601 putative metal binding site [ion binding]; other site 204773004602 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 204773004603 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 204773004604 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 204773004605 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 204773004606 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773004607 active site 204773004608 phosphorylation site [posttranslational modification] 204773004609 intermolecular recognition site; other site 204773004610 dimerization interface [polypeptide binding]; other site 204773004611 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 204773004612 DNA binding site [nucleotide binding] 204773004613 sensor protein KdpD; Provisional; Region: PRK10490 204773004614 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 204773004615 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 204773004616 Ligand Binding Site [chemical binding]; other site 204773004617 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 204773004618 GAF domain; Region: GAF_3; pfam13492 204773004619 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 204773004620 dimer interface [polypeptide binding]; other site 204773004621 phosphorylation site [posttranslational modification] 204773004622 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773004623 ATP binding site [chemical binding]; other site 204773004624 Mg2+ binding site [ion binding]; other site 204773004625 G-X-G motif; other site 204773004626 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 204773004627 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 204773004628 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 204773004629 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 204773004630 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 204773004631 active site 204773004632 catalytic residues [active] 204773004633 metal binding site [ion binding]; metal-binding site 204773004634 Uncharacterized conserved protein [Function unknown]; Region: COG1262 204773004635 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 204773004636 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773004637 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773004638 metal binding site [ion binding]; metal-binding site 204773004639 active site 204773004640 I-site; other site 204773004641 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 204773004642 Transglycosylase; Region: Transgly; pfam00912 204773004643 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 204773004644 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 204773004645 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 204773004646 Walker A/P-loop; other site 204773004647 ATP binding site [chemical binding]; other site 204773004648 Q-loop/lid; other site 204773004649 ABC transporter signature motif; other site 204773004650 Walker B; other site 204773004651 D-loop; other site 204773004652 H-loop/switch region; other site 204773004653 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 204773004654 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 204773004655 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 204773004656 dimer interface [polypeptide binding]; other site 204773004657 conserved gate region; other site 204773004658 putative PBP binding loops; other site 204773004659 ABC-ATPase subunit interface; other site 204773004660 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 204773004661 dimer interface [polypeptide binding]; other site 204773004662 conserved gate region; other site 204773004663 putative PBP binding loops; other site 204773004664 ABC-ATPase subunit interface; other site 204773004665 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 204773004666 4Fe-4S binding domain; Region: Fer4; cl02805 204773004667 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 204773004668 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 204773004669 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 204773004670 ligand binding site [chemical binding]; other site 204773004671 flexible hinge region; other site 204773004672 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 204773004673 putative switch regulator; other site 204773004674 non-specific DNA interactions [nucleotide binding]; other site 204773004675 DNA binding site [nucleotide binding] 204773004676 sequence specific DNA binding site [nucleotide binding]; other site 204773004677 putative cAMP binding site [chemical binding]; other site 204773004678 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 204773004679 FixH; Region: FixH; pfam05751 204773004680 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 204773004681 4Fe-4S binding domain; Region: Fer4_5; pfam12801 204773004682 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 204773004683 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 204773004684 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 204773004685 Cytochrome c; Region: Cytochrom_C; pfam00034 204773004686 Cytochrome c; Region: Cytochrom_C; pfam00034 204773004687 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 204773004688 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 204773004689 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 204773004690 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 204773004691 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 204773004692 Low-spin heme binding site [chemical binding]; other site 204773004693 Putative water exit pathway; other site 204773004694 Binuclear center (active site) [active] 204773004695 Putative proton exit pathway; other site 204773004696 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 204773004697 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 204773004698 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 204773004699 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 204773004700 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 204773004701 metal-binding site [ion binding] 204773004702 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 204773004703 Soluble P-type ATPase [General function prediction only]; Region: COG4087 204773004704 Family description; Region: DsbD_2; pfam13386 204773004705 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 204773004706 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 204773004707 FeS/SAM binding site; other site 204773004708 HemN C-terminal domain; Region: HemN_C; pfam06969 204773004709 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 204773004710 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 204773004711 FeS/SAM binding site; other site 204773004712 HemN C-terminal domain; Region: HemN_C; pfam06969 204773004713 NnrS protein; Region: NnrS; pfam05940 204773004714 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 204773004715 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 204773004716 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 204773004717 dimerization interface [polypeptide binding]; other site 204773004718 GAF domain; Region: GAF_3; pfam13492 204773004719 Histidine kinase; Region: HisKA_3; pfam07730 204773004720 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773004721 ATP binding site [chemical binding]; other site 204773004722 Mg2+ binding site [ion binding]; other site 204773004723 G-X-G motif; other site 204773004724 transcriptional regulator NarL; Provisional; Region: PRK10651 204773004725 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773004726 active site 204773004727 phosphorylation site [posttranslational modification] 204773004728 intermolecular recognition site; other site 204773004729 dimerization interface [polypeptide binding]; other site 204773004730 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 204773004731 DNA binding residues [nucleotide binding] 204773004732 dimerization interface [polypeptide binding]; other site 204773004733 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 204773004734 metal-binding site [ion binding] 204773004735 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 204773004736 Walker A motif; other site 204773004737 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 204773004738 Tar ligand binding domain homologue; Region: TarH; pfam02203 204773004739 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 204773004740 dimer interface [polypeptide binding]; other site 204773004741 putative CheW interface [polypeptide binding]; other site 204773004742 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 204773004743 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 204773004744 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 204773004745 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 204773004746 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 204773004747 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 204773004748 [4Fe-4S] binding site [ion binding]; other site 204773004749 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 204773004750 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 204773004751 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 204773004752 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 204773004753 molybdopterin cofactor binding site; other site 204773004754 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 204773004755 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 204773004756 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 204773004757 putative substrate translocation pore; other site 204773004758 Transcriptional regulator; Region: Rrf2; cl17282 204773004759 Rrf2 family protein; Region: rrf2_super; TIGR00738 204773004760 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 204773004761 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 204773004762 Binuclear center (active site) [active] 204773004763 K-pathway; other site 204773004764 Putative proton exit pathway; other site 204773004765 Putative water exit pathway; other site 204773004766 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 204773004767 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 204773004768 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 204773004769 substrate-cofactor binding pocket; other site 204773004770 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204773004771 catalytic residue [active] 204773004772 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 204773004773 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 204773004774 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 204773004775 S-adenosylmethionine binding site [chemical binding]; other site 204773004776 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 204773004777 ATP cone domain; Region: ATP-cone; pfam03477 204773004778 Class III ribonucleotide reductase; Region: RNR_III; cd01675 204773004779 effector binding site; other site 204773004780 active site 204773004781 Zn binding site [ion binding]; other site 204773004782 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 204773004783 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 204773004784 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 204773004785 FeS/SAM binding site; other site 204773004786 DGC domain; Region: DGC; pfam08859 204773004787 SCP-2 sterol transfer family; Region: SCP2; cl01225 204773004788 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 204773004789 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 204773004790 putative protease; Provisional; Region: PRK15447 204773004791 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 204773004792 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 204773004793 Peptidase family U32; Region: Peptidase_U32; pfam01136 204773004794 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 204773004795 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 204773004796 FMN binding site [chemical binding]; other site 204773004797 substrate binding site [chemical binding]; other site 204773004798 putative catalytic residue [active] 204773004799 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 204773004800 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 204773004801 CPxP motif; other site 204773004802 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 204773004803 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 204773004804 ligand binding site [chemical binding]; other site 204773004805 flexible hinge region; other site 204773004806 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 204773004807 putative switch regulator; other site 204773004808 non-specific DNA interactions [nucleotide binding]; other site 204773004809 DNA binding site [nucleotide binding] 204773004810 sequence specific DNA binding site [nucleotide binding]; other site 204773004811 putative cAMP binding site [chemical binding]; other site 204773004812 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 204773004813 malate synthase A; Region: malate_syn_A; TIGR01344 204773004814 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 204773004815 active site 204773004816 isocitrate lyase; Provisional; Region: PRK15063 204773004817 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 204773004818 tetramer interface [polypeptide binding]; other site 204773004819 active site 204773004820 Mg2+/Mn2+ binding site [ion binding]; other site 204773004821 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 204773004822 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 204773004823 ATP binding site [chemical binding]; other site 204773004824 Mg++ binding site [ion binding]; other site 204773004825 motif III; other site 204773004826 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 204773004827 nucleotide binding region [chemical binding]; other site 204773004828 ATP-binding site [chemical binding]; other site 204773004829 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 204773004830 putative RNA binding site [nucleotide binding]; other site 204773004831 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 204773004832 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 204773004833 S-adenosylmethionine binding site [chemical binding]; other site 204773004834 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 204773004835 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 204773004836 HSP70 interaction site [polypeptide binding]; other site 204773004837 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 204773004838 substrate binding site [polypeptide binding]; other site 204773004839 dimer interface [polypeptide binding]; other site 204773004840 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 204773004841 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 204773004842 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 204773004843 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 204773004844 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 204773004845 RNA binding surface [nucleotide binding]; other site 204773004846 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 204773004847 active site 204773004848 uracil binding [chemical binding]; other site 204773004849 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 204773004850 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 204773004851 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204773004852 homodimer interface [polypeptide binding]; other site 204773004853 catalytic residue [active] 204773004854 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 204773004855 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 204773004856 S-adenosylmethionine binding site [chemical binding]; other site 204773004857 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 204773004858 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 204773004859 Putative glucoamylase; Region: Glycoamylase; pfam10091 204773004860 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 204773004861 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 204773004862 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 204773004863 Protein of unknown function, DUF608; Region: DUF608; pfam04685 204773004864 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 204773004865 trimer interface [polypeptide binding]; other site 204773004866 putative Zn binding site [ion binding]; other site 204773004867 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 204773004868 Permease; Region: Permease; pfam02405 204773004869 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 204773004870 mce related protein; Region: MCE; pfam02470 204773004871 Uncharacterized conserved protein [Function unknown]; Region: COG4544 204773004872 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 204773004873 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 204773004874 phosphate binding site [ion binding]; other site 204773004875 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 204773004876 HPP family; Region: HPP; pfam04982 204773004877 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 204773004878 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 204773004879 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 204773004880 PAS domain; Region: PAS_9; pfam13426 204773004881 putative active site [active] 204773004882 heme pocket [chemical binding]; other site 204773004883 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 204773004884 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 204773004885 Cl- selectivity filter; other site 204773004886 Cl- binding residues [ion binding]; other site 204773004887 pore gating glutamate residue; other site 204773004888 dimer interface [polypeptide binding]; other site 204773004889 FOG: CBS domain [General function prediction only]; Region: COG0517 204773004890 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc; cd04612 204773004891 MarR family; Region: MarR_2; pfam12802 204773004892 Restriction endonuclease; Region: Mrr_cat; pfam04471 204773004893 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 204773004894 Transcriptional regulator [Transcription]; Region: LysR; COG0583 204773004895 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204773004896 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 204773004897 dimerization interface [polypeptide binding]; other site 204773004898 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 204773004899 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 204773004900 NAD(P) binding site [chemical binding]; other site 204773004901 active site 204773004902 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 204773004903 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 204773004904 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 204773004905 putative CheW interface [polypeptide binding]; other site 204773004906 Transposase; Region: HTH_Tnp_1; cl17663 204773004907 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 204773004908 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 204773004909 conserved cys residue [active] 204773004910 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 204773004911 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 204773004912 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 204773004913 DNA ligase; Provisional; Region: PRK09125 204773004914 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 204773004915 DNA binding site [nucleotide binding] 204773004916 active site 204773004917 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 204773004918 DNA binding site [nucleotide binding] 204773004919 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 204773004920 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_5; cd06338 204773004921 putative ligand binding site [chemical binding]; other site 204773004922 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773004923 metal binding site [ion binding]; metal-binding site 204773004924 active site 204773004925 I-site; other site 204773004926 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 204773004927 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 204773004928 Putative motility protein; Region: YjfB_motility; pfam14070 204773004929 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 204773004930 PLD-like domain; Region: PLDc_2; pfam13091 204773004931 putative active site [active] 204773004932 catalytic site [active] 204773004933 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 204773004934 PLD-like domain; Region: PLDc_2; pfam13091 204773004935 putative active site [active] 204773004936 catalytic site [active] 204773004937 Cache domain; Region: Cache_1; pfam02743 204773004938 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773004939 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773004940 metal binding site [ion binding]; metal-binding site 204773004941 active site 204773004942 I-site; other site 204773004943 Uncharacterized conserved protein [Function unknown]; Region: COG0397 204773004944 hypothetical protein; Validated; Region: PRK00029 204773004945 methionine sulfoxide reductase B; Provisional; Region: PRK00222 204773004946 SelR domain; Region: SelR; pfam01641 204773004947 intracellular septation protein A; Reviewed; Region: PRK00259 204773004948 BolA-like protein; Region: BolA; pfam01722 204773004949 SurA N-terminal domain; Region: SurA_N_3; cl07813 204773004950 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 204773004951 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 204773004952 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 204773004953 dimerization interface [polypeptide binding]; other site 204773004954 ATP binding site [chemical binding]; other site 204773004955 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 204773004956 dimerization interface [polypeptide binding]; other site 204773004957 ATP binding site [chemical binding]; other site 204773004958 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 204773004959 putative active site [active] 204773004960 catalytic triad [active] 204773004961 DoxX; Region: DoxX; pfam07681 204773004962 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 204773004963 Domain of unknown function DUF20; Region: UPF0118; pfam01594 204773004964 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 204773004965 hydroxyglutarate oxidase; Provisional; Region: PRK11728 204773004966 putative carbohydrate kinase; Provisional; Region: PRK10565 204773004967 Uncharacterized conserved protein [Function unknown]; Region: COG0062 204773004968 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 204773004969 putative substrate binding site [chemical binding]; other site 204773004970 putative ATP binding site [chemical binding]; other site 204773004971 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 204773004972 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 204773004973 Walker A/P-loop; other site 204773004974 ATP binding site [chemical binding]; other site 204773004975 Q-loop/lid; other site 204773004976 ABC transporter signature motif; other site 204773004977 Walker B; other site 204773004978 D-loop; other site 204773004979 H-loop/switch region; other site 204773004980 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 204773004981 active site 204773004982 catalytic triad [active] 204773004983 oxyanion hole [active] 204773004984 switch loop; other site 204773004985 SurA N-terminal domain; Region: SurA_N_3; cl07813 204773004986 periplasmic folding chaperone; Provisional; Region: PRK10788 204773004987 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 204773004988 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 204773004989 IHF dimer interface [polypeptide binding]; other site 204773004990 IHF - DNA interface [nucleotide binding]; other site 204773004991 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 204773004992 Found in ATP-dependent protease La (LON); Region: LON; smart00464 204773004993 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 204773004994 Walker A motif; other site 204773004995 ATP binding site [chemical binding]; other site 204773004996 Walker B motif; other site 204773004997 Violaxanthin de-epoxidase (VDE); Region: VDE; cl06253 204773004998 arginine finger; other site 204773004999 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 204773005000 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 204773005001 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 204773005002 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 204773005003 Walker A motif; other site 204773005004 ATP binding site [chemical binding]; other site 204773005005 Walker B motif; other site 204773005006 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 204773005007 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 204773005008 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 204773005009 oligomer interface [polypeptide binding]; other site 204773005010 active site residues [active] 204773005011 trigger factor; Provisional; Region: tig; PRK01490 204773005012 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 204773005013 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 204773005014 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 204773005015 active site lid residues [active] 204773005016 substrate binding pocket [chemical binding]; other site 204773005017 catalytic residues [active] 204773005018 substrate-Mg2+ binding site; other site 204773005019 aspartate-rich region 1; other site 204773005020 aspartate-rich region 2; other site 204773005021 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 204773005022 active site lid residues [active] 204773005023 substrate binding pocket [chemical binding]; other site 204773005024 catalytic residues [active] 204773005025 substrate-Mg2+ binding site; other site 204773005026 aspartate-rich region 1; other site 204773005027 aspartate-rich region 2; other site 204773005028 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 204773005029 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 204773005030 DNA repair protein RadA; Provisional; Region: PRK11823 204773005031 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 204773005032 Walker A motif/ATP binding site; other site 204773005033 ATP binding site [chemical binding]; other site 204773005034 Walker B motif; other site 204773005035 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 204773005036 alanine racemase; Reviewed; Region: dadX; PRK03646 204773005037 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 204773005038 active site 204773005039 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 204773005040 substrate binding site [chemical binding]; other site 204773005041 catalytic residues [active] 204773005042 dimer interface [polypeptide binding]; other site 204773005043 lysophospholipid transporter LplT; Provisional; Region: PRK11195 204773005044 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 204773005045 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 204773005046 Fe-S cluster binding site [ion binding]; other site 204773005047 active site 204773005048 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 204773005049 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 204773005050 Coenzyme A binding pocket [chemical binding]; other site 204773005051 Glycoprotease family; Region: Peptidase_M22; pfam00814 204773005052 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 204773005053 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 204773005054 catalytic residues [active] 204773005055 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 204773005056 DNA-binding site [nucleotide binding]; DNA binding site 204773005057 RNA-binding motif; other site 204773005058 Predicted ATPase [General function prediction only]; Region: COG1485 204773005059 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 204773005060 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 204773005061 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 204773005062 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 204773005063 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 204773005064 E3 interaction surface; other site 204773005065 lipoyl attachment site [posttranslational modification]; other site 204773005066 e3 binding domain; Region: E3_binding; pfam02817 204773005067 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 204773005068 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 204773005069 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 204773005070 TPP-binding site [chemical binding]; other site 204773005071 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 204773005072 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 204773005073 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 204773005074 dimer interface [polypeptide binding]; other site 204773005075 active site 204773005076 citrylCoA binding site [chemical binding]; other site 204773005077 NADH binding [chemical binding]; other site 204773005078 cationic pore residues; other site 204773005079 oxalacetate/citrate binding site [chemical binding]; other site 204773005080 coenzyme A binding site [chemical binding]; other site 204773005081 catalytic triad [active] 204773005082 Flavinator of succinate dehydrogenase; Region: Sdh5; pfam03937 204773005083 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 204773005084 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 204773005085 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 204773005086 L-aspartate oxidase; Provisional; Region: PRK06175 204773005087 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 204773005088 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 204773005089 SdhC subunit interface [polypeptide binding]; other site 204773005090 proximal heme binding site [chemical binding]; other site 204773005091 cardiolipin binding site; other site 204773005092 Iron-sulfur protein interface; other site 204773005093 proximal quinone binding site [chemical binding]; other site 204773005094 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 204773005095 Iron-sulfur protein interface; other site 204773005096 proximal quinone binding site [chemical binding]; other site 204773005097 SdhD (CybS) interface [polypeptide binding]; other site 204773005098 proximal heme binding site [chemical binding]; other site 204773005099 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 204773005100 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204773005101 DNA-binding site [nucleotide binding]; DNA binding site 204773005102 UTRA domain; Region: UTRA; pfam07702 204773005103 malate dehydrogenase; Provisional; Region: PRK05442 204773005104 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 204773005105 NAD(P) binding site [chemical binding]; other site 204773005106 dimer interface [polypeptide binding]; other site 204773005107 malate binding site [chemical binding]; other site 204773005108 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 204773005109 aconitate hydratase; Validated; Region: PRK09277 204773005110 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 204773005111 substrate binding site [chemical binding]; other site 204773005112 ligand binding site [chemical binding]; other site 204773005113 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 204773005114 substrate binding site [chemical binding]; other site 204773005115 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 204773005116 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 204773005117 putative active site [active] 204773005118 putative metal binding residues [ion binding]; other site 204773005119 signature motif; other site 204773005120 putative dimer interface [polypeptide binding]; other site 204773005121 putative phosphate binding site [ion binding]; other site 204773005122 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 204773005123 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 204773005124 putative active site [active] 204773005125 Zn binding site [ion binding]; other site 204773005126 Conserved nitrate reductase-associated protein (Nitr_red_assoc); Region: Nitr_red_assoc; pfam09655 204773005127 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 204773005128 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 204773005129 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 204773005130 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 204773005131 homodimer interface [polypeptide binding]; other site 204773005132 substrate-cofactor binding pocket; other site 204773005133 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204773005134 catalytic residue [active] 204773005135 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 204773005136 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 204773005137 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 204773005138 dimer interface [polypeptide binding]; other site 204773005139 putative CheW interface [polypeptide binding]; other site 204773005140 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 204773005141 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 204773005142 DNA binding residues [nucleotide binding] 204773005143 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 204773005144 IHF - DNA interface [nucleotide binding]; other site 204773005145 IHF dimer interface [polypeptide binding]; other site 204773005146 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 204773005147 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 204773005148 putative tRNA-binding site [nucleotide binding]; other site 204773005149 B3/4 domain; Region: B3_4; pfam03483 204773005150 tRNA synthetase B5 domain; Region: B5; smart00874 204773005151 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 204773005152 dimer interface [polypeptide binding]; other site 204773005153 motif 1; other site 204773005154 motif 3; other site 204773005155 motif 2; other site 204773005156 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 204773005157 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 204773005158 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 204773005159 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 204773005160 dimer interface [polypeptide binding]; other site 204773005161 motif 1; other site 204773005162 active site 204773005163 motif 2; other site 204773005164 motif 3; other site 204773005165 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 204773005166 23S rRNA binding site [nucleotide binding]; other site 204773005167 L21 binding site [polypeptide binding]; other site 204773005168 L13 binding site [polypeptide binding]; other site 204773005169 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 204773005170 translation initiation factor IF-3; Region: infC; TIGR00168 204773005171 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 204773005172 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 204773005173 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 204773005174 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 204773005175 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 204773005176 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 204773005177 active site 204773005178 dimer interface [polypeptide binding]; other site 204773005179 motif 1; other site 204773005180 motif 2; other site 204773005181 motif 3; other site 204773005182 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 204773005183 anticodon binding site; other site 204773005184 HD domain; Region: HD_4; pfam13328 204773005185 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 204773005186 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 204773005187 synthetase active site [active] 204773005188 NTP binding site [chemical binding]; other site 204773005189 metal binding site [ion binding]; metal-binding site 204773005190 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 204773005191 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 204773005192 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 204773005193 homotrimer interaction site [polypeptide binding]; other site 204773005194 putative active site [active] 204773005195 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 204773005196 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 204773005197 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 204773005198 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 204773005199 NAD(P) binding site [chemical binding]; other site 204773005200 active site 204773005201 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 204773005202 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 204773005203 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 204773005204 PAS domain; Region: PAS_9; pfam13426 204773005205 putative active site [active] 204773005206 heme pocket [chemical binding]; other site 204773005207 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 204773005208 DNA binding residues [nucleotide binding] 204773005209 dimerization interface [polypeptide binding]; other site 204773005210 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 204773005211 classical (c) SDRs; Region: SDR_c; cd05233 204773005212 NAD(P) binding site [chemical binding]; other site 204773005213 active site 204773005214 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 204773005215 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 204773005216 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 204773005217 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 204773005218 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 204773005219 dimer interface [polypeptide binding]; other site 204773005220 ADP-ribose binding site [chemical binding]; other site 204773005221 active site 204773005222 nudix motif; other site 204773005223 metal binding site [ion binding]; metal-binding site 204773005224 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 204773005225 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 204773005226 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 204773005227 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 204773005228 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 204773005229 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 204773005230 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 204773005231 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 204773005232 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 204773005233 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 204773005234 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 204773005235 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 204773005236 4Fe-4S binding domain; Region: Fer4; pfam00037 204773005237 4Fe-4S binding domain; Region: Fer4; pfam00037 204773005238 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 204773005239 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 204773005240 NADH dehydrogenase subunit G; Validated; Region: PRK09129 204773005241 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 204773005242 catalytic loop [active] 204773005243 iron binding site [ion binding]; other site 204773005244 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 204773005245 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 204773005246 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cd02775 204773005247 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 204773005248 SLBB domain; Region: SLBB; pfam10531 204773005249 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 204773005250 NADH dehydrogenase subunit E; Validated; Region: PRK07539 204773005251 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 204773005252 putative dimer interface [polypeptide binding]; other site 204773005253 [2Fe-2S] cluster binding site [ion binding]; other site 204773005254 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 204773005255 NADH dehydrogenase subunit D; Validated; Region: PRK06075 204773005256 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 204773005257 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 204773005258 NADH dehydrogenase subunit B; Validated; Region: PRK06411 204773005259 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 204773005260 Preprotein translocase SecG subunit; Region: SecG; pfam03840 204773005261 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 204773005262 triosephosphate isomerase; Provisional; Region: PRK14565 204773005263 substrate binding site [chemical binding]; other site 204773005264 dimer interface [polypeptide binding]; other site 204773005265 catalytic triad [active] 204773005266 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 204773005267 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 204773005268 RNase E interface [polypeptide binding]; other site 204773005269 trimer interface [polypeptide binding]; other site 204773005270 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 204773005271 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 204773005272 RNase E interface [polypeptide binding]; other site 204773005273 trimer interface [polypeptide binding]; other site 204773005274 active site 204773005275 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 204773005276 putative nucleic acid binding region [nucleotide binding]; other site 204773005277 G-X-X-G motif; other site 204773005278 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 204773005279 RNA binding site [nucleotide binding]; other site 204773005280 domain interface; other site 204773005281 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 204773005282 16S/18S rRNA binding site [nucleotide binding]; other site 204773005283 S13e-L30e interaction site [polypeptide binding]; other site 204773005284 25S rRNA binding site [nucleotide binding]; other site 204773005285 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 204773005286 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 204773005287 putative substrate translocation pore; other site 204773005288 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 204773005289 Protein of unknown function, DUF488; Region: DUF488; pfam04343 204773005290 integrase; Provisional; Region: PRK09692 204773005291 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 204773005292 active site 204773005293 Int/Topo IB signature motif; other site 204773005294 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 204773005295 additional DNA contacts [nucleotide binding]; other site 204773005296 mismatch recognition site; other site 204773005297 active site 204773005298 zinc binding site [ion binding]; other site 204773005299 DNA intercalation site [nucleotide binding]; other site 204773005300 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 204773005301 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 204773005302 DNA binding site [nucleotide binding] 204773005303 substrate interaction site [chemical binding]; other site 204773005304 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 204773005305 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 204773005306 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 204773005307 active site 204773005308 AIPR protein; Region: AIPR; pfam10592 204773005309 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 204773005310 Z1 domain; Region: Z1; pfam10593 204773005311 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 204773005312 phage/plasmid-like protein TIGR03299; Region: LGT_TIGR03299 204773005313 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 204773005314 hypothetical protein; Reviewed; Region: PRK00024 204773005315 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 204773005316 MPN+ (JAMM) motif; other site 204773005317 Zinc-binding site [ion binding]; other site 204773005318 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 204773005319 haemagglutination activity domain; Region: Haemagg_act; smart00912 204773005320 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 204773005321 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 204773005322 Surface antigen; Region: Bac_surface_Ag; pfam01103 204773005323 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 204773005324 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 204773005325 PAS domain; Region: PAS_9; pfam13426 204773005326 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 204773005327 Histidine kinase; Region: HisKA_3; pfam07730 204773005328 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773005329 ATP binding site [chemical binding]; other site 204773005330 Mg2+ binding site [ion binding]; other site 204773005331 G-X-G motif; other site 204773005332 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 204773005333 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773005334 active site 204773005335 phosphorylation site [posttranslational modification] 204773005336 intermolecular recognition site; other site 204773005337 dimerization interface [polypeptide binding]; other site 204773005338 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 204773005339 DNA binding residues [nucleotide binding] 204773005340 dimerization interface [polypeptide binding]; other site 204773005341 Proline dehydrogenase; Region: Pro_dh; cl03282 204773005342 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773005343 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773005344 metal binding site [ion binding]; metal-binding site 204773005345 active site 204773005346 I-site; other site 204773005347 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 204773005348 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 204773005349 FlaG protein; Region: FlaG; pfam03646 204773005350 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 204773005351 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 204773005352 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 204773005353 Flagellar protein FliS; Region: FliS; cl00654 204773005354 Flagellar protein FliT; Region: FliT; pfam05400 204773005355 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 204773005356 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 204773005357 Flagellar regulator YcgR; Region: YcgR; pfam07317 204773005358 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 204773005359 PilZ domain; Region: PilZ; pfam07238 204773005360 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 204773005361 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 204773005362 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 204773005363 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 204773005364 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 204773005365 FliG C-terminal domain; Region: FliG_C; pfam01706 204773005366 flagellar assembly protein H; Validated; Region: fliH; PRK05687 204773005367 Flagellar assembly protein FliH; Region: FliH; pfam02108 204773005368 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 204773005369 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 204773005370 Walker A motif/ATP binding site; other site 204773005371 Walker B motif; other site 204773005372 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 204773005373 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 204773005374 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 204773005375 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 204773005376 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 204773005377 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 204773005378 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 204773005379 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 204773005380 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 204773005381 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 204773005382 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 204773005383 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 204773005384 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 204773005385 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 204773005386 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 204773005387 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 204773005388 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 204773005389 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 204773005390 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 204773005391 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 204773005392 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 204773005393 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 204773005394 Flagellar L-ring protein; Region: FlgH; pfam02107 204773005395 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 204773005396 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 204773005397 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 204773005398 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 204773005399 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 204773005400 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 204773005401 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 204773005402 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 204773005403 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 204773005404 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 204773005405 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 204773005406 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgC; COG1558 204773005407 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 204773005408 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 204773005409 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 204773005410 SAF-like; Region: SAF_2; pfam13144 204773005411 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 204773005412 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 204773005413 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 204773005414 FlgN protein; Region: FlgN; pfam05130 204773005415 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 204773005416 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773005417 active site 204773005418 phosphorylation site [posttranslational modification] 204773005419 intermolecular recognition site; other site 204773005420 dimerization interface [polypeptide binding]; other site 204773005421 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 204773005422 DNA binding site [nucleotide binding] 204773005423 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 204773005424 dimerization interface [polypeptide binding]; other site 204773005425 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 204773005426 dimer interface [polypeptide binding]; other site 204773005427 phosphorylation site [posttranslational modification] 204773005428 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773005429 ATP binding site [chemical binding]; other site 204773005430 Mg2+ binding site [ion binding]; other site 204773005431 G-X-G motif; other site 204773005432 Uncharacterized conserved protein [Function unknown]; Region: COG3461 204773005433 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 204773005434 homotrimer interaction site [polypeptide binding]; other site 204773005435 zinc binding site [ion binding]; other site 204773005436 CDP-binding sites; other site 204773005437 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 204773005438 substrate binding site; other site 204773005439 dimer interface; other site 204773005440 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 204773005441 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 204773005442 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 204773005443 ATP binding site [chemical binding]; other site 204773005444 putative Mg++ binding site [ion binding]; other site 204773005445 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 204773005446 nucleotide binding region [chemical binding]; other site 204773005447 ATP-binding site [chemical binding]; other site 204773005448 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 204773005449 phosphoserine phosphatase SerB; Region: serB; TIGR00338 204773005450 Acid Phosphatase; Region: Acid_PPase; cl17256 204773005451 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 204773005452 motif II; other site 204773005453 L-lactate permease; Region: Lactate_perm; cl00701 204773005454 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 204773005455 Predicted membrane protein [Function unknown]; Region: COG3671 204773005456 cystathionine beta-lyase; Provisional; Region: PRK07050 204773005457 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 204773005458 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 204773005459 catalytic residue [active] 204773005460 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 204773005461 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 204773005462 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 204773005463 FeS/SAM binding site; other site 204773005464 TRAM domain; Region: TRAM; cl01282 204773005465 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 204773005466 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 204773005467 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 204773005468 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 204773005469 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 204773005470 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 204773005471 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 204773005472 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 204773005473 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 204773005474 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 204773005475 RNA binding surface [nucleotide binding]; other site 204773005476 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 204773005477 active site 204773005478 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 204773005479 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 204773005480 binding surface 204773005481 TPR motif; other site 204773005482 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204773005483 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 204773005484 Walker A/P-loop; other site 204773005485 ATP binding site [chemical binding]; other site 204773005486 Q-loop/lid; other site 204773005487 ABC transporter signature motif; other site 204773005488 Walker B; other site 204773005489 D-loop; other site 204773005490 H-loop/switch region; other site 204773005491 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 204773005492 HlyD family secretion protein; Region: HlyD_3; pfam13437 204773005493 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 204773005494 hypothetical protein; Validated; Region: PRK02101 204773005495 PIN domain; Region: PIN_3; pfam13470 204773005496 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 204773005497 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 204773005498 binding surface 204773005499 TPR motif; other site 204773005500 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 204773005501 TPR motif; other site 204773005502 binding surface 204773005503 AAA domain; Region: AAA_22; pfam13401 204773005504 Secretin and TonB N terminus short domain; Region: STN; smart00965 204773005505 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 204773005506 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 204773005507 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 204773005508 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 204773005509 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 204773005510 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 204773005511 VcfQ bacterial pilus biogenesis protein, lectin domain; Region: lectin_VcfQ; cd06900 204773005512 putative metal binding site [ion binding]; other site 204773005513 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 204773005514 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 204773005515 PilX N-terminal; Region: PilX_N; pfam14341 204773005516 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 204773005517 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 204773005518 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 204773005519 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 204773005520 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 204773005521 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 204773005522 Walker A motif; other site 204773005523 ATP binding site [chemical binding]; other site 204773005524 Walker B motif; other site 204773005525 enoyl-CoA hydratase; Provisional; Region: PRK07511 204773005526 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 204773005527 substrate binding site [chemical binding]; other site 204773005528 oxyanion hole (OAH) forming residues; other site 204773005529 trimer interface [polypeptide binding]; other site 204773005530 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 204773005531 catalytic core [active] 204773005532 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 204773005533 dimer interface [polypeptide binding]; other site 204773005534 GSH binding site (G-site) [chemical binding]; other site 204773005535 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 204773005536 N-terminal domain interface [polypeptide binding]; other site 204773005537 putative dimer interface [polypeptide binding]; other site 204773005538 active site 204773005539 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 204773005540 putative active site [active] 204773005541 putative catalytic site [active] 204773005542 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 204773005543 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 204773005544 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 204773005545 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 204773005546 ArsC family; Region: ArsC; pfam03960 204773005547 catalytic residues [active] 204773005548 Major Facilitator Superfamily; Region: MFS_1; pfam07690 204773005549 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 204773005550 putative substrate translocation pore; other site 204773005551 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 204773005552 arsenical-resistance protein; Region: acr3; TIGR00832 204773005553 Low molecular weight phosphatase family; Region: LMWPc; cd00115 204773005554 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 204773005555 active site 204773005556 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 204773005557 dimerization interface [polypeptide binding]; other site 204773005558 putative DNA binding site [nucleotide binding]; other site 204773005559 putative Zn2+ binding site [ion binding]; other site 204773005560 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 204773005561 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 204773005562 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 204773005563 Magnesium ion binding site [ion binding]; other site 204773005564 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 204773005565 ParB-like nuclease domain; Region: ParBc; pfam02195 204773005566 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 204773005567 Domain of unknown function (DUF1845); Region: DUF1845; pfam08900 204773005568 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 204773005569 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 204773005570 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 204773005571 ssDNA binding site [nucleotide binding]; other site 204773005572 dimer interface [polypeptide binding]; other site 204773005573 tetramer (dimer of dimers) interface [polypeptide binding]; other site 204773005574 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 204773005575 active site 204773005576 putative metal-binding site [ion binding]; other site 204773005577 putative interdomain interaction site [polypeptide binding]; other site 204773005578 putative nucleotide binding site [chemical binding]; other site 204773005579 DNA topoisomerase; Region: Topoisom_bac; pfam01131 204773005580 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 204773005581 domain I; other site 204773005582 DNA binding groove [nucleotide binding] 204773005583 phosphate binding site [ion binding]; other site 204773005584 domain II; other site 204773005585 domain III; other site 204773005586 nucleotide binding site [chemical binding]; other site 204773005587 catalytic site [active] 204773005588 domain IV; other site 204773005589 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 204773005590 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 204773005591 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 204773005592 Domain of unknown function (DUF932); Region: DUF932; pfam06067 204773005593 Protein of unknown function (DUF3275); Region: DUF3275; pfam11679 204773005594 Methyltransferase domain; Region: Methyltransf_26; pfam13659 204773005595 S-adenosylmethionine binding site [chemical binding]; other site 204773005596 DEAD-like helicases superfamily; Region: DEXDc; smart00487 204773005597 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 204773005598 nucleotide binding region [chemical binding]; other site 204773005599 ATP-binding site [chemical binding]; other site 204773005600 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 204773005601 Part of AAA domain; Region: AAA_19; pfam13245 204773005602 Family description; Region: UvrD_C_2; pfam13538 204773005603 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 204773005604 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204773005605 Walker A/P-loop; other site 204773005606 ATP binding site [chemical binding]; other site 204773005607 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 204773005608 putative active site [active] 204773005609 putative metal-binding site [ion binding]; other site 204773005610 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 204773005611 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 204773005612 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 204773005613 N-acetyl-D-glucosamine binding site [chemical binding]; other site 204773005614 catalytic residue [active] 204773005615 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 204773005616 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 204773005617 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 204773005618 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 204773005619 AAA domain; Region: AAA_23; pfam13476 204773005620 P-loop containing region of AAA domain; Region: AAA_29; cl17516 204773005621 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204773005622 ABC transporter signature motif; other site 204773005623 Walker B; other site 204773005624 D-loop; other site 204773005625 H-loop/switch region; other site 204773005626 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 204773005627 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 204773005628 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 204773005629 Protein of unknown function (DUF3262); Region: DUF3262; pfam11660 204773005630 integrating conjugative element membrane protein, PFL_4702 family; Region: conj_TIGR03745 204773005631 Protein of unknown function (DUF3487); Region: DUF3487; pfam11990 204773005632 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 204773005633 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 204773005634 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 204773005635 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 204773005636 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 204773005637 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 204773005638 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 204773005639 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 204773005640 catalytic residues [active] 204773005641 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 204773005642 MPN+ (JAMM) motif; other site 204773005643 Zinc-binding site [ion binding]; other site 204773005644 Protein of unknown function (DUF1525); Region: DUF1525; pfam07511 204773005645 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 204773005646 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 204773005647 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 204773005648 Protein of unknown function (DUF3742); Region: DUF3742; pfam12553 204773005649 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 204773005650 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 204773005651 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 204773005652 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 204773005653 Putative helicase; Region: TraI_2; pfam07514 204773005654 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 204773005655 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204773005656 Walker A/P-loop; other site 204773005657 ATP binding site [chemical binding]; other site 204773005658 Q-loop/lid; other site 204773005659 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204773005660 ABC transporter signature motif; other site 204773005661 Walker B; other site 204773005662 D-loop; other site 204773005663 H-loop/switch region; other site 204773005664 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204773005665 AAA domain; Region: AAA_21; pfam13304 204773005666 Walker A/P-loop; other site 204773005667 ATP binding site [chemical binding]; other site 204773005668 Q-loop/lid; other site 204773005669 ABC transporter signature motif; other site 204773005670 Walker B; other site 204773005671 D-loop; other site 204773005672 H-loop/switch region; other site 204773005673 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 204773005674 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 204773005675 Thioredoxin; Region: Thioredoxin_4; pfam13462 204773005676 recombination factor protein RarA; Reviewed; Region: PRK13342 204773005677 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 204773005678 Walker A motif; other site 204773005679 ATP binding site [chemical binding]; other site 204773005680 Walker B motif; other site 204773005681 arginine finger; other site 204773005682 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 204773005683 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 204773005684 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 204773005685 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 204773005686 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 204773005687 S-formylglutathione hydrolase; Region: PLN02442 204773005688 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 204773005689 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 204773005690 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_19; cd07262 204773005691 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 204773005692 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 204773005693 substrate binding site [chemical binding]; other site 204773005694 catalytic Zn binding site [ion binding]; other site 204773005695 NAD binding site [chemical binding]; other site 204773005696 structural Zn binding site [ion binding]; other site 204773005697 dimer interface [polypeptide binding]; other site 204773005698 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 204773005699 putative metal binding site [ion binding]; other site 204773005700 putative homodimer interface [polypeptide binding]; other site 204773005701 putative homotetramer interface [polypeptide binding]; other site 204773005702 putative homodimer-homodimer interface [polypeptide binding]; other site 204773005703 putative allosteric switch controlling residues; other site 204773005704 Predicted amidohydrolase [General function prediction only]; Region: COG0388 204773005705 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 204773005706 putative active site [active] 204773005707 catalytic triad [active] 204773005708 putative dimer interface [polypeptide binding]; other site 204773005709 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 204773005710 Transcriptional regulator [Transcription]; Region: LysR; COG0583 204773005711 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204773005712 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 204773005713 putative effector binding pocket; other site 204773005714 dimerization interface [polypeptide binding]; other site 204773005715 excinuclease ABC subunit B; Provisional; Region: PRK05298 204773005716 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 204773005717 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 204773005718 nucleotide binding region [chemical binding]; other site 204773005719 ATP-binding site [chemical binding]; other site 204773005720 Ultra-violet resistance protein B; Region: UvrB; pfam12344 204773005721 Protein of unknown function, DUF488; Region: DUF488; pfam04343 204773005722 Transcriptional regulator [Transcription]; Region: LysR; COG0583 204773005723 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204773005724 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 204773005725 dimerization interface [polypeptide binding]; other site 204773005726 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 204773005727 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 204773005728 NAD binding site [chemical binding]; other site 204773005729 catalytic Zn binding site [ion binding]; other site 204773005730 structural Zn binding site [ion binding]; other site 204773005731 Transcriptional regulator [Transcription]; Region: LysR; COG0583 204773005732 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 204773005733 dimerization interface [polypeptide binding]; other site 204773005734 substrate binding pocket [chemical binding]; other site 204773005735 Transcriptional regulator [Transcription]; Region: LysR; COG0583 204773005736 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 204773005737 dimerization interface [polypeptide binding]; other site 204773005738 substrate binding pocket [chemical binding]; other site 204773005739 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 204773005740 integrase; Provisional; Region: PRK09692 204773005741 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 204773005742 active site 204773005743 Int/Topo IB signature motif; other site 204773005744 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 204773005745 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 204773005746 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 204773005747 GIY-YIG motif/motif A; other site 204773005748 active site 204773005749 catalytic site [active] 204773005750 putative DNA binding site [nucleotide binding]; other site 204773005751 metal binding site [ion binding]; metal-binding site 204773005752 UvrB/uvrC motif; Region: UVR; pfam02151 204773005753 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 204773005754 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 204773005755 beta-hexosaminidase; Provisional; Region: PRK05337 204773005756 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 204773005757 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 204773005758 active site 204773005759 hydrophilic channel; other site 204773005760 dimerization interface [polypeptide binding]; other site 204773005761 catalytic residues [active] 204773005762 active site lid [active] 204773005763 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 204773005764 Recombination protein O N terminal; Region: RecO_N; pfam11967 204773005765 Recombination protein O C terminal; Region: RecO_C; pfam02565 204773005766 GTPase Era; Reviewed; Region: era; PRK00089 204773005767 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 204773005768 G1 box; other site 204773005769 GTP/Mg2+ binding site [chemical binding]; other site 204773005770 Switch I region; other site 204773005771 G2 box; other site 204773005772 Switch II region; other site 204773005773 G3 box; other site 204773005774 G4 box; other site 204773005775 G5 box; other site 204773005776 KH domain; Region: KH_2; pfam07650 204773005777 ribonuclease III; Reviewed; Region: rnc; PRK00102 204773005778 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 204773005779 dimerization interface [polypeptide binding]; other site 204773005780 active site 204773005781 metal binding site [ion binding]; metal-binding site 204773005782 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 204773005783 dsRNA binding site [nucleotide binding]; other site 204773005784 signal peptidase I; Provisional; Region: PRK10861 204773005785 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 204773005786 Catalytic site [active] 204773005787 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 204773005788 GTP-binding protein LepA; Provisional; Region: PRK05433 204773005789 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 204773005790 G1 box; other site 204773005791 putative GEF interaction site [polypeptide binding]; other site 204773005792 GTP/Mg2+ binding site [chemical binding]; other site 204773005793 Switch I region; other site 204773005794 G2 box; other site 204773005795 G3 box; other site 204773005796 Switch II region; other site 204773005797 G4 box; other site 204773005798 G5 box; other site 204773005799 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 204773005800 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 204773005801 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 204773005802 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 204773005803 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 204773005804 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 204773005805 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 204773005806 protein binding site [polypeptide binding]; other site 204773005807 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 204773005808 protein binding site [polypeptide binding]; other site 204773005809 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 204773005810 anti-sigma E factor; Provisional; Region: rseB; PRK09455 204773005811 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 204773005812 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 204773005813 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 204773005814 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 204773005815 DNA binding residues [nucleotide binding] 204773005816 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 204773005817 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 204773005818 dimer interface [polypeptide binding]; other site 204773005819 active site 204773005820 acyl carrier protein; Provisional; Region: acpP; PRK00982 204773005821 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 204773005822 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 204773005823 NAD(P) binding site [chemical binding]; other site 204773005824 homotetramer interface [polypeptide binding]; other site 204773005825 homodimer interface [polypeptide binding]; other site 204773005826 active site 204773005827 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 204773005828 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 204773005829 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 204773005830 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 204773005831 dimer interface [polypeptide binding]; other site 204773005832 active site 204773005833 CoA binding pocket [chemical binding]; other site 204773005834 putative phosphate acyltransferase; Provisional; Region: PRK05331 204773005835 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 204773005836 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 204773005837 Maf-like protein; Region: Maf; pfam02545 204773005838 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 204773005839 active site 204773005840 dimer interface [polypeptide binding]; other site 204773005841 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 204773005842 putative SAM binding site [chemical binding]; other site 204773005843 homodimer interface [polypeptide binding]; other site 204773005844 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 204773005845 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 204773005846 tandem repeat interface [polypeptide binding]; other site 204773005847 oligomer interface [polypeptide binding]; other site 204773005848 active site residues [active] 204773005849 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 204773005850 iron-sulfur cluster [ion binding]; other site 204773005851 [2Fe-2S] cluster binding site [ion binding]; other site 204773005852 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 204773005853 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 204773005854 motif II; other site 204773005855 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 204773005856 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 204773005857 RNA binding surface [nucleotide binding]; other site 204773005858 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 204773005859 active site 204773005860 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 204773005861 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 204773005862 homodimer interface [polypeptide binding]; other site 204773005863 oligonucleotide binding site [chemical binding]; other site 204773005864 riboflavin synthase subunit beta; Provisional; Region: PRK12419 204773005865 active site 204773005866 homopentamer interface [polypeptide binding]; other site 204773005867 RmuC family; Region: RmuC; pfam02646 204773005868 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 204773005869 apolar tunnel; other site 204773005870 heme binding site [chemical binding]; other site 204773005871 dimerization interface [polypeptide binding]; other site 204773005872 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 204773005873 FtsX-like permease family; Region: FtsX; pfam02687 204773005874 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 204773005875 RES domain; Region: RES; pfam08808 204773005876 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 204773005877 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 204773005878 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 204773005879 active site 204773005880 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 204773005881 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773005882 active site 204773005883 phosphorylation site [posttranslational modification] 204773005884 intermolecular recognition site; other site 204773005885 dimerization interface [polypeptide binding]; other site 204773005886 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 204773005887 DNA binding site [nucleotide binding] 204773005888 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 204773005889 HAMP domain; Region: HAMP; pfam00672 204773005890 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 204773005891 dimer interface [polypeptide binding]; other site 204773005892 phosphorylation site [posttranslational modification] 204773005893 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773005894 ATP binding site [chemical binding]; other site 204773005895 Mg2+ binding site [ion binding]; other site 204773005896 G-X-G motif; other site 204773005897 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 204773005898 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 204773005899 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 204773005900 PLD-like domain; Region: PLDc_2; pfam13091 204773005901 putative active site [active] 204773005902 catalytic site [active] 204773005903 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 204773005904 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 204773005905 active site 204773005906 metal binding site [ion binding]; metal-binding site 204773005907 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 204773005908 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 204773005909 Protein of unknown function (DUF342); Region: DUF342; pfam03961 204773005910 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 204773005911 putative transposase OrfB; Reviewed; Region: PHA02517 204773005912 HTH-like domain; Region: HTH_21; pfam13276 204773005913 Integrase core domain; Region: rve; pfam00665 204773005914 Integrase core domain; Region: rve_3; pfam13683 204773005915 Transposase; Region: HTH_Tnp_1; pfam01527 204773005916 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 204773005917 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 204773005918 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 204773005919 Amidase; Region: Amidase; cl11426 204773005920 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 204773005921 D-galactonate transporter; Region: 2A0114; TIGR00893 204773005922 putative substrate translocation pore; other site 204773005923 Transcriptional regulator [Transcription]; Region: LysR; COG0583 204773005924 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204773005925 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 204773005926 putative dimerization interface [polypeptide binding]; other site 204773005927 putative transposase OrfB; Reviewed; Region: PHA02517 204773005928 HTH-like domain; Region: HTH_21; pfam13276 204773005929 Integrase core domain; Region: rve; pfam00665 204773005930 Integrase core domain; Region: rve_3; pfam13683 204773005931 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 204773005932 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 204773005933 FeS/SAM binding site; other site 204773005934 HemN C-terminal domain; Region: HemN_C; pfam06969 204773005935 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 204773005936 active site 204773005937 dimerization interface [polypeptide binding]; other site 204773005938 ribonuclease PH; Reviewed; Region: rph; PRK00173 204773005939 Ribonuclease PH; Region: RNase_PH_bact; cd11362 204773005940 hexamer interface [polypeptide binding]; other site 204773005941 active site 204773005942 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 204773005943 Protein phosphatase 2C; Region: PP2C; pfam00481 204773005944 active site 204773005945 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 204773005946 Catalytic domain of Protein Kinases; Region: PKc; cd00180 204773005947 active site 204773005948 ATP binding site [chemical binding]; other site 204773005949 substrate binding site [chemical binding]; other site 204773005950 activation loop (A-loop); other site 204773005951 hypothetical protein; Provisional; Region: PRK11820 204773005952 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 204773005953 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 204773005954 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 204773005955 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 204773005956 catalytic site [active] 204773005957 G-X2-G-X-G-K; other site 204773005958 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 204773005959 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 204773005960 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 204773005961 Zn2+ binding site [ion binding]; other site 204773005962 Mg2+ binding site [ion binding]; other site 204773005963 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 204773005964 synthetase active site [active] 204773005965 NTP binding site [chemical binding]; other site 204773005966 metal binding site [ion binding]; metal-binding site 204773005967 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 204773005968 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 204773005969 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 204773005970 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 204773005971 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 204773005972 EAL domain; Region: EAL; pfam00563 204773005973 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 204773005974 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 204773005975 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 204773005976 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 204773005977 THF binding site; other site 204773005978 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 204773005979 substrate binding site [chemical binding]; other site 204773005980 THF binding site; other site 204773005981 zinc-binding site [ion binding]; other site 204773005982 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 204773005983 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204773005984 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 204773005985 putative dimerization interface [polypeptide binding]; other site 204773005986 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 204773005987 putative hydrophobic ligand binding site [chemical binding]; other site 204773005988 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 204773005989 Domain of unknown function (DU1801); Region: DUF1801; cl17490 204773005990 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 204773005991 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 204773005992 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 204773005993 Glutamate binding site [chemical binding]; other site 204773005994 NAD binding site [chemical binding]; other site 204773005995 catalytic residues [active] 204773005996 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 204773005997 active site 204773005998 metal binding site [ion binding]; metal-binding site 204773005999 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 204773006000 Clp amino terminal domain; Region: Clp_N; pfam02861 204773006001 Clp amino terminal domain; Region: Clp_N; pfam02861 204773006002 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 204773006003 Walker A motif; other site 204773006004 ATP binding site [chemical binding]; other site 204773006005 Walker B motif; other site 204773006006 arginine finger; other site 204773006007 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 204773006008 Walker A motif; other site 204773006009 ATP binding site [chemical binding]; other site 204773006010 Walker B motif; other site 204773006011 arginine finger; other site 204773006012 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 204773006013 chromosome condensation membrane protein; Provisional; Region: PRK14196 204773006014 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 204773006015 MoaE homodimer interface [polypeptide binding]; other site 204773006016 MoaD interaction [polypeptide binding]; other site 204773006017 active site residues [active] 204773006018 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 204773006019 MoaE interaction surface [polypeptide binding]; other site 204773006020 MoeB interaction surface [polypeptide binding]; other site 204773006021 thiocarboxylated glycine; other site 204773006022 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 204773006023 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 204773006024 dimer interface [polypeptide binding]; other site 204773006025 putative functional site; other site 204773006026 putative MPT binding site; other site 204773006027 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 204773006028 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 204773006029 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204773006030 catalytic residue [active] 204773006031 homoserine dehydrogenase; Provisional; Region: PRK06349 204773006032 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 204773006033 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 204773006034 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 204773006035 aminotransferase AlaT; Validated; Region: PRK09265 204773006036 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 204773006037 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204773006038 homodimer interface [polypeptide binding]; other site 204773006039 catalytic residue [active] 204773006040 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 204773006041 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 204773006042 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 204773006043 catalytic triad [active] 204773006044 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 204773006045 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 204773006046 putative active site [active] 204773006047 PhoH-like protein; Region: PhoH; pfam02562 204773006048 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 204773006049 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 204773006050 replicative DNA helicase; Provisional; Region: PRK07004 204773006051 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 204773006052 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 204773006053 Walker A motif; other site 204773006054 ATP binding site [chemical binding]; other site 204773006055 Walker B motif; other site 204773006056 DNA binding loops [nucleotide binding] 204773006057 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 204773006058 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 204773006059 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 204773006060 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 204773006061 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 204773006062 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 204773006063 LexA repressor; Validated; Region: PRK00215 204773006064 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 204773006065 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 204773006066 Catalytic site [active] 204773006067 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 204773006068 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 204773006069 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 204773006070 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 204773006071 active site 204773006072 dimerization interface [polypeptide binding]; other site 204773006073 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 204773006074 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 204773006075 ATP binding site [chemical binding]; other site 204773006076 Mg++ binding site [ion binding]; other site 204773006077 motif III; other site 204773006078 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 204773006079 nucleotide binding region [chemical binding]; other site 204773006080 ATP-binding site [chemical binding]; other site 204773006081 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 204773006082 MutS domain I; Region: MutS_I; pfam01624 204773006083 MutS domain II; Region: MutS_II; pfam05188 204773006084 MutS domain III; Region: MutS_III; pfam05192 204773006085 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 204773006086 Walker A/P-loop; other site 204773006087 ATP binding site [chemical binding]; other site 204773006088 Q-loop/lid; other site 204773006089 ABC transporter signature motif; other site 204773006090 Walker B; other site 204773006091 D-loop; other site 204773006092 H-loop/switch region; other site 204773006093 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 204773006094 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 204773006095 Cupin superfamily protein; Region: Cupin_4; pfam08007 204773006096 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 204773006097 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 204773006098 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 204773006099 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 204773006100 dihydrodipicolinate synthase; Region: dapA; TIGR00674 204773006101 dimer interface [polypeptide binding]; other site 204773006102 active site 204773006103 catalytic residue [active] 204773006104 Methyltransferase domain; Region: Methyltransf_23; pfam13489 204773006105 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 204773006106 S-adenosylmethionine binding site [chemical binding]; other site 204773006107 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 204773006108 active site 204773006109 HIGH motif; other site 204773006110 dimer interface [polypeptide binding]; other site 204773006111 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 204773006112 active site 204773006113 KMSKS motif; other site 204773006114 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 204773006115 Peptidase family M50; Region: Peptidase_M50; pfam02163 204773006116 active site 204773006117 putative substrate binding region [chemical binding]; other site 204773006118 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 204773006119 heat shock protein HtpX; Provisional; Region: PRK05457 204773006120 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 204773006121 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 204773006122 active site 204773006123 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 204773006124 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 204773006125 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 204773006126 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 204773006127 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 204773006128 dinuclear metal binding motif [ion binding]; other site 204773006129 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 204773006130 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 204773006131 trimer interface [polypeptide binding]; other site 204773006132 putative metal binding site [ion binding]; other site 204773006133 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 204773006134 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 204773006135 dimerization interface [polypeptide binding]; other site 204773006136 domain crossover interface; other site 204773006137 redox-dependent activation switch; other site 204773006138 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 204773006139 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 204773006140 enolase; Provisional; Region: eno; PRK00077 204773006141 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 204773006142 dimer interface [polypeptide binding]; other site 204773006143 metal binding site [ion binding]; metal-binding site 204773006144 substrate binding pocket [chemical binding]; other site 204773006145 CTP synthetase; Validated; Region: pyrG; PRK05380 204773006146 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 204773006147 Catalytic site [active] 204773006148 active site 204773006149 UTP binding site [chemical binding]; other site 204773006150 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 204773006151 active site 204773006152 putative oxyanion hole; other site 204773006153 catalytic triad [active] 204773006154 Competence protein; Region: Competence; pfam03772 204773006155 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 204773006156 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 204773006157 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 204773006158 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 204773006159 putative transposase OrfB; Reviewed; Region: PHA02517 204773006160 HTH-like domain; Region: HTH_21; pfam13276 204773006161 Integrase core domain; Region: rve; pfam00665 204773006162 Integrase core domain; Region: rve_3; pfam13683 204773006163 Transposase; Region: HTH_Tnp_1; pfam01527 204773006164 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 204773006165 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 204773006166 DNA methylase; Region: N6_N4_Mtase; pfam01555 204773006167 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 204773006168 Part of AAA domain; Region: AAA_19; pfam13245 204773006169 AAA domain; Region: AAA_12; pfam13087 204773006170 Family description; Region: UvrD_C_2; pfam13538 204773006171 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 204773006172 WYL domain; Region: WYL; pfam13280 204773006173 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 204773006174 active site 204773006175 nucleophile elbow; other site 204773006176 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 204773006177 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 204773006178 ATP binding site [chemical binding]; other site 204773006179 substrate interface [chemical binding]; other site 204773006180 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 204773006181 TrfA protein; Region: TrfA; pfam07042 204773006182 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 204773006183 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 204773006184 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 204773006185 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 204773006186 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 204773006187 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 204773006188 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 204773006189 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 204773006190 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 204773006191 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 204773006192 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 204773006193 AAA domain; Region: AAA_22; pfam13401 204773006194 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 204773006195 Fibrinogen-related domains (FReDs); C terminal globular domain of fibrinogen. Fibrinogen is involved in blood clotting, being activated by thrombin to assemble into fibrin clots. The N-termini of 2 times 3 chains come together to form a globular...; Region: FReD; cl00085 204773006196 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 204773006197 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 204773006198 active site 204773006199 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 204773006200 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 204773006201 Walker A/P-loop; other site 204773006202 ATP binding site [chemical binding]; other site 204773006203 Q-loop/lid; other site 204773006204 ABC transporter signature motif; other site 204773006205 Walker B; other site 204773006206 D-loop; other site 204773006207 H-loop/switch region; other site 204773006208 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 204773006209 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 204773006210 FtsX-like permease family; Region: FtsX; pfam02687 204773006211 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 204773006212 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 204773006213 DHH family; Region: DHH; pfam01368 204773006214 DHHA1 domain; Region: DHHA1; pfam02272 204773006215 peptide chain release factor 2; Provisional; Region: PRK07342 204773006216 This domain is found in peptide chain release factors; Region: PCRF; smart00937 204773006217 RF-1 domain; Region: RF-1; pfam00472 204773006218 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 204773006219 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 204773006220 dimer interface [polypeptide binding]; other site 204773006221 putative anticodon binding site; other site 204773006222 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 204773006223 motif 1; other site 204773006224 active site 204773006225 motif 2; other site 204773006226 motif 3; other site 204773006227 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 204773006228 chaperone protein HscA; Provisional; Region: hscA; PRK05183 204773006229 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 204773006230 nucleotide binding site [chemical binding]; other site 204773006231 putative NEF/HSP70 interaction site [polypeptide binding]; other site 204773006232 SBD interface [polypeptide binding]; other site 204773006233 co-chaperone HscB; Provisional; Region: hscB; PRK03578 204773006234 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 204773006235 HSP70 interaction site [polypeptide binding]; other site 204773006236 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 204773006237 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 204773006238 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 204773006239 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 204773006240 trimerization site [polypeptide binding]; other site 204773006241 active site 204773006242 cysteine desulfurase; Provisional; Region: PRK14012 204773006243 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 204773006244 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 204773006245 catalytic residue [active] 204773006246 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 204773006247 Rrf2 family protein; Region: rrf2_super; TIGR00738 204773006248 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 204773006249 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 204773006250 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 204773006251 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 204773006252 ligand binding site [chemical binding]; other site 204773006253 active site 204773006254 excinuclease ABC subunit B; Provisional; Region: PRK05298 204773006255 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 204773006256 ATP binding site [chemical binding]; other site 204773006257 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 204773006258 nucleotide binding region [chemical binding]; other site 204773006259 ATP-binding site [chemical binding]; other site 204773006260 Ultra-violet resistance protein B; Region: UvrB; pfam12344 204773006261 UvrB/uvrC motif; Region: UVR; pfam02151 204773006262 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 204773006263 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 204773006264 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204773006265 homodimer interface [polypeptide binding]; other site 204773006266 catalytic residue [active] 204773006267 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 204773006268 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 204773006269 putative transposase OrfB; Reviewed; Region: PHA02517 204773006270 HTH-like domain; Region: HTH_21; pfam13276 204773006271 Integrase core domain; Region: rve; pfam00665 204773006272 Integrase core domain; Region: rve_3; pfam13683 204773006273 Transposase; Region: HTH_Tnp_1; pfam01527 204773006274 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 204773006275 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 204773006276 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 204773006277 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 204773006278 active site 204773006279 conjugal transfer protein TrbH; Provisional; Region: PRK13883 204773006280 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 204773006281 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 204773006282 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 204773006283 S-adenosylmethionine binding site [chemical binding]; other site 204773006284 PAS domain; Region: PAS_9; pfam13426 204773006285 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773006286 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773006287 metal binding site [ion binding]; metal-binding site 204773006288 active site 204773006289 I-site; other site 204773006290 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 204773006291 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 204773006292 dimer interface [polypeptide binding]; other site 204773006293 substrate binding site [chemical binding]; other site 204773006294 ATP binding site [chemical binding]; other site 204773006295 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 204773006296 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 204773006297 catalytic residue [active] 204773006298 ribonuclease E; Reviewed; Region: rne; PRK10811 204773006299 Terminase-like family; Region: Terminase_6; pfam03237 204773006300 Phage terminase large subunit; Region: Terminase_3; cl12054 204773006301 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 204773006302 NinB protein; Region: NinB; pfam05772 204773006303 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 204773006304 putative single-stranded DNA-binding protein; Region: PHA01740 204773006305 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 204773006306 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 204773006307 active site 204773006308 Int/Topo IB signature motif; other site 204773006309 DNA binding site [nucleotide binding] 204773006310 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 204773006311 active site 204773006312 catalytic site [active] 204773006313 substrate binding site [chemical binding]; other site 204773006314 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 204773006315 RNA/DNA hybrid binding site [nucleotide binding]; other site 204773006316 active site 204773006317 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 204773006318 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 204773006319 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 204773006320 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 204773006321 N-acetyl-D-glucosamine binding site [chemical binding]; other site 204773006322 catalytic residue [active] 204773006323 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 204773006324 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 204773006325 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 204773006326 Walker A/P-loop; other site 204773006327 ATP binding site [chemical binding]; other site 204773006328 Q-loop/lid; other site 204773006329 ABC transporter signature motif; other site 204773006330 Walker B; other site 204773006331 D-loop; other site 204773006332 H-loop/switch region; other site 204773006333 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 204773006334 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 204773006335 Walker A/P-loop; other site 204773006336 ATP binding site [chemical binding]; other site 204773006337 Q-loop/lid; other site 204773006338 ABC transporter signature motif; other site 204773006339 Walker B; other site 204773006340 D-loop; other site 204773006341 H-loop/switch region; other site 204773006342 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 204773006343 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 204773006344 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 204773006345 dimer interface [polypeptide binding]; other site 204773006346 conserved gate region; other site 204773006347 putative PBP binding loops; other site 204773006348 ABC-ATPase subunit interface; other site 204773006349 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 204773006350 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 204773006351 dimer interface [polypeptide binding]; other site 204773006352 conserved gate region; other site 204773006353 putative PBP binding loops; other site 204773006354 ABC-ATPase subunit interface; other site 204773006355 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 204773006356 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 204773006357 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 204773006358 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 204773006359 NAD binding site [chemical binding]; other site 204773006360 homotetramer interface [polypeptide binding]; other site 204773006361 homodimer interface [polypeptide binding]; other site 204773006362 substrate binding site [chemical binding]; other site 204773006363 active site 204773006364 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 204773006365 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 204773006366 ATP binding site [chemical binding]; other site 204773006367 Mg++ binding site [ion binding]; other site 204773006368 motif III; other site 204773006369 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 204773006370 nucleotide binding region [chemical binding]; other site 204773006371 ATP-binding site [chemical binding]; other site 204773006372 Transcriptional regulator [Transcription]; Region: LysR; COG0583 204773006373 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204773006374 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 204773006375 putative effector binding pocket; other site 204773006376 dimerization interface [polypeptide binding]; other site 204773006377 Ferredoxin [Energy production and conversion]; Region: COG1146 204773006378 4Fe-4S binding domain; Region: Fer4; cl02805 204773006379 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 204773006380 Domain of Unknown Function with PDB structure (DUF3861); Region: DUF3861; pfam12977 204773006381 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 204773006382 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 204773006383 putative active site [active] 204773006384 metal binding site [ion binding]; metal-binding site 204773006385 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 204773006386 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 204773006387 putative dimer interface [polypeptide binding]; other site 204773006388 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 204773006389 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 204773006390 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 204773006391 ligand binding site [chemical binding]; other site 204773006392 flexible hinge region; other site 204773006393 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 204773006394 putative switch regulator; other site 204773006395 non-specific DNA interactions [nucleotide binding]; other site 204773006396 DNA binding site [nucleotide binding] 204773006397 sequence specific DNA binding site [nucleotide binding]; other site 204773006398 putative cAMP binding site [chemical binding]; other site 204773006399 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 204773006400 BON domain; Region: BON; pfam04972 204773006401 BON domain; Region: BON; pfam04972 204773006402 BON domain; Region: BON; pfam04972 204773006403 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 204773006404 Ligand Binding Site [chemical binding]; other site 204773006405 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 204773006406 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 204773006407 Poly(3-hydroxyalkanoate) synthetase [Lipid metabolism]; Region: PhaC; COG3243 204773006408 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 204773006409 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 204773006410 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 204773006411 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 204773006412 Soluble P-type ATPase [General function prediction only]; Region: COG4087 204773006413 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 204773006414 Hemerythrin; Region: Hemerythrin; cd12107 204773006415 Fe binding site [ion binding]; other site 204773006416 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 204773006417 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 204773006418 NAD(P) binding site [chemical binding]; other site 204773006419 homotetramer interface [polypeptide binding]; other site 204773006420 homodimer interface [polypeptide binding]; other site 204773006421 active site 204773006422 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 204773006423 Ligand Binding Site [chemical binding]; other site 204773006424 Cytochrome c; Region: Cytochrom_C; cl11414 204773006425 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 204773006426 sulfite oxidase; Provisional; Region: PLN00177 204773006427 Moco binding site; other site 204773006428 metal coordination site [ion binding]; other site 204773006429 hypothetical protein; Provisional; Region: PRK06132 204773006430 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 204773006431 Ligand Binding Site [chemical binding]; other site 204773006432 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 204773006433 putative FMN binding site [chemical binding]; other site 204773006434 NADPH bind site [chemical binding]; other site 204773006435 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 204773006436 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 204773006437 Walker A/P-loop; other site 204773006438 ATP binding site [chemical binding]; other site 204773006439 Q-loop/lid; other site 204773006440 ABC transporter signature motif; other site 204773006441 Walker B; other site 204773006442 D-loop; other site 204773006443 H-loop/switch region; other site 204773006444 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 204773006445 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 204773006446 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 204773006447 DevC protein; Region: devC; TIGR01185 204773006448 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 204773006449 FtsX-like permease family; Region: FtsX; pfam02687 204773006450 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 204773006451 ABC-2 type transporter; Region: ABC2_membrane; cl17235 204773006452 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204773006453 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 204773006454 Walker A/P-loop; other site 204773006455 ATP binding site [chemical binding]; other site 204773006456 Q-loop/lid; other site 204773006457 ABC transporter signature motif; other site 204773006458 Walker B; other site 204773006459 D-loop; other site 204773006460 H-loop/switch region; other site 204773006461 Protein of unknown function (DUF1269); Region: DUF1269; cl01978 204773006462 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 204773006463 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 204773006464 putative dimer interface [polypeptide binding]; other site 204773006465 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 204773006466 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 204773006467 hypothetical protein; Provisional; Region: PRK08609 204773006468 active site 204773006469 primer binding site [nucleotide binding]; other site 204773006470 NTP binding site [chemical binding]; other site 204773006471 metal binding triad [ion binding]; metal-binding site 204773006472 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 204773006473 active site 204773006474 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 204773006475 DNA-binding site [nucleotide binding]; DNA binding site 204773006476 RNA-binding motif; other site 204773006477 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 204773006478 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 204773006479 putative NAD(P) binding site [chemical binding]; other site 204773006480 catalytic Zn binding site [ion binding]; other site 204773006481 putative substrate binding site [chemical binding]; other site 204773006482 structural Zn binding site [ion binding]; other site 204773006483 Dodecin; Region: Dodecin; pfam07311 204773006484 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 204773006485 Lumazine binding domain; Region: Lum_binding; pfam00677 204773006486 Lumazine binding domain; Region: Lum_binding; pfam00677 204773006487 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 204773006488 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 204773006489 catalytic motif [active] 204773006490 Zn binding site [ion binding]; other site 204773006491 RibD C-terminal domain; Region: RibD_C; cl17279 204773006492 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 204773006493 Type II transport protein GspH; Region: GspH; pfam12019 204773006494 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 204773006495 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 204773006496 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 204773006497 Type IV pilus assembly protein PilX C-term; Region: PilX; pfam13681 204773006498 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 204773006499 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 204773006500 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 204773006501 ATP cone domain; Region: ATP-cone; pfam03477 204773006502 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 204773006503 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 204773006504 dimer interface [polypeptide binding]; other site 204773006505 active site 204773006506 glycine-pyridoxal phosphate binding site [chemical binding]; other site 204773006507 folate binding site [chemical binding]; other site 204773006508 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 204773006509 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 204773006510 HlyD family secretion protein; Region: HlyD_3; pfam13437 204773006511 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 204773006512 Protein export membrane protein; Region: SecD_SecF; cl14618 204773006513 Bovine immunodeficiency virus surface protein (SU); Region: BIV_Env; pfam05858 204773006514 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 204773006515 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 204773006516 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 204773006517 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 204773006518 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 204773006519 active site 204773006520 putative catalytic site [active] 204773006521 metal binding site A [ion binding]; metal-binding site 204773006522 putative phosphate binding site [ion binding]; other site 204773006523 DNA binding site [nucleotide binding] 204773006524 putative AP binding site [nucleotide binding]; other site 204773006525 putative metal binding site B [ion binding]; other site 204773006526 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 204773006527 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 204773006528 S-adenosylmethionine binding site [chemical binding]; other site 204773006529 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 204773006530 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204773006531 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 204773006532 substrate binding site [chemical binding]; other site 204773006533 dimerization interface [polypeptide binding]; other site 204773006534 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 204773006535 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 204773006536 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 204773006537 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 204773006538 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 204773006539 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 204773006540 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 204773006541 Active Sites [active] 204773006542 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 204773006543 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 204773006544 Active Sites [active] 204773006545 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 204773006546 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 204773006547 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 204773006548 CysD dimerization site [polypeptide binding]; other site 204773006549 G1 box; other site 204773006550 putative GEF interaction site [polypeptide binding]; other site 204773006551 GTP/Mg2+ binding site [chemical binding]; other site 204773006552 Switch I region; other site 204773006553 G2 box; other site 204773006554 G3 box; other site 204773006555 Switch II region; other site 204773006556 G4 box; other site 204773006557 G5 box; other site 204773006558 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 204773006559 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 204773006560 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 204773006561 active site 204773006562 SAM binding site [chemical binding]; other site 204773006563 homodimer interface [polypeptide binding]; other site 204773006564 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 204773006565 putative active site [active] 204773006566 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 204773006567 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 204773006568 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 204773006569 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 204773006570 multifunctional aminopeptidase A; Provisional; Region: PRK00913 204773006571 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 204773006572 interface (dimer of trimers) [polypeptide binding]; other site 204773006573 Substrate-binding/catalytic site; other site 204773006574 Zn-binding sites [ion binding]; other site 204773006575 malonic semialdehyde reductase; Provisional; Region: PRK10538 204773006576 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 204773006577 NAD(P) binding site [chemical binding]; other site 204773006578 active site 204773006579 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 204773006580 active site 204773006581 TolQ protein; Region: tolQ; TIGR02796 204773006582 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 204773006583 TolR protein; Region: tolR; TIGR02801 204773006584 TolA protein; Region: tolA_full; TIGR02794 204773006585 TonB C terminal; Region: TonB_2; pfam13103 204773006586 translocation protein TolB; Provisional; Region: tolB; PRK02889 204773006587 TolB amino-terminal domain; Region: TolB_N; pfam04052 204773006588 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 204773006589 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 204773006590 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 204773006591 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 204773006592 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 204773006593 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 204773006594 ligand binding site [chemical binding]; other site 204773006595 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 204773006596 Tetratricopeptide repeat; Region: TPR_6; pfam13174 204773006597 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 204773006598 Predicted small secreted protein [Function unknown]; Region: COG5510 204773006599 BON domain; Region: BON; pfam04972 204773006600 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 204773006601 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 204773006602 FMN binding site [chemical binding]; other site 204773006603 active site 204773006604 catalytic residues [active] 204773006605 substrate binding site [chemical binding]; other site 204773006606 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 204773006607 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 204773006608 PAS domain; Region: PAS_9; pfam13426 204773006609 putative active site [active] 204773006610 heme pocket [chemical binding]; other site 204773006611 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773006612 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773006613 metal binding site [ion binding]; metal-binding site 204773006614 active site 204773006615 I-site; other site 204773006616 Sensors of blue-light using FAD; Region: BLUF; pfam04940 204773006617 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 204773006618 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 204773006619 DNA binding residues [nucleotide binding] 204773006620 B12 binding domain; Region: B12-binding_2; pfam02607 204773006621 B12 binding domain; Region: B12-binding; pfam02310 204773006622 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 204773006623 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 204773006624 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 204773006625 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 204773006626 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 204773006627 S-adenosylmethionine binding site [chemical binding]; other site 204773006628 MFS/sugar transport protein; Region: MFS_2; pfam13347 204773006629 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 204773006630 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 204773006631 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 204773006632 NAD(P) binding site [chemical binding]; other site 204773006633 active site 204773006634 SnoaL-like domain; Region: SnoaL_2; pfam12680 204773006635 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 204773006636 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 204773006637 inhibitor-cofactor binding pocket; inhibition site 204773006638 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204773006639 catalytic residue [active] 204773006640 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 204773006641 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 204773006642 G1 box; other site 204773006643 putative GEF interaction site [polypeptide binding]; other site 204773006644 GTP/Mg2+ binding site [chemical binding]; other site 204773006645 Switch I region; other site 204773006646 G2 box; other site 204773006647 G3 box; other site 204773006648 Switch II region; other site 204773006649 G4 box; other site 204773006650 G5 box; other site 204773006651 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 204773006652 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 204773006653 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 204773006654 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 204773006655 RNA binding site [nucleotide binding]; other site 204773006656 active site 204773006657 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 204773006658 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 204773006659 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 204773006660 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 204773006661 translation initiation factor IF-2; Region: IF-2; TIGR00487 204773006662 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 204773006663 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 204773006664 G1 box; other site 204773006665 putative GEF interaction site [polypeptide binding]; other site 204773006666 GTP/Mg2+ binding site [chemical binding]; other site 204773006667 Switch I region; other site 204773006668 G2 box; other site 204773006669 G3 box; other site 204773006670 Switch II region; other site 204773006671 G4 box; other site 204773006672 G5 box; other site 204773006673 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 204773006674 Translation-initiation factor 2; Region: IF-2; pfam11987 204773006675 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 204773006676 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 204773006677 NusA N-terminal domain; Region: NusA_N; pfam08529 204773006678 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 204773006679 RNA binding site [nucleotide binding]; other site 204773006680 homodimer interface [polypeptide binding]; other site 204773006681 NusA-like KH domain; Region: KH_5; pfam13184 204773006682 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 204773006683 G-X-X-G motif; other site 204773006684 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 204773006685 Sm and related proteins; Region: Sm_like; cl00259 204773006686 ribosome maturation protein RimP; Reviewed; Region: PRK00092 204773006687 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 204773006688 putative oligomer interface [polypeptide binding]; other site 204773006689 putative RNA binding site [nucleotide binding]; other site 204773006690 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 204773006691 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 204773006692 RNA binding surface [nucleotide binding]; other site 204773006693 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 204773006694 probable active site [active] 204773006695 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 204773006696 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 204773006697 nudix motif; other site 204773006698 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 204773006699 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 204773006700 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 204773006701 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 204773006702 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 204773006703 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 204773006704 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 204773006705 quinone interaction residues [chemical binding]; other site 204773006706 active site 204773006707 catalytic residues [active] 204773006708 FMN binding site [chemical binding]; other site 204773006709 substrate binding site [chemical binding]; other site 204773006710 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 204773006711 Clp amino terminal domain; Region: Clp_N; pfam02861 204773006712 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 204773006713 Walker A motif; other site 204773006714 ATP binding site [chemical binding]; other site 204773006715 Walker B motif; other site 204773006716 arginine finger; other site 204773006717 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 204773006718 Walker A motif; other site 204773006719 ATP binding site [chemical binding]; other site 204773006720 Walker B motif; other site 204773006721 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 204773006722 Uncharacterized conserved protein [Function unknown]; Region: COG2127 204773006723 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 204773006724 DNA-binding site [nucleotide binding]; DNA binding site 204773006725 RNA-binding motif; other site 204773006726 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 204773006727 pseudouridine synthase; Region: TIGR00093 204773006728 active site 204773006729 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 204773006730 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 204773006731 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 204773006732 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 204773006733 Uncharacterized conserved protein [Function unknown]; Region: COG2912 204773006734 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 204773006735 ABC transporter ATPase component; Reviewed; Region: PRK11147 204773006736 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204773006737 Walker A/P-loop; other site 204773006738 ATP binding site [chemical binding]; other site 204773006739 Q-loop/lid; other site 204773006740 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 204773006741 ABC transporter signature motif; other site 204773006742 Walker B; other site 204773006743 ABC transporter; Region: ABC_tran_2; pfam12848 204773006744 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 204773006745 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 204773006746 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 204773006747 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 204773006748 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 204773006749 Coenzyme A binding pocket [chemical binding]; other site 204773006750 Transcriptional regulators [Transcription]; Region: GntR; COG1802 204773006751 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204773006752 DNA-binding site [nucleotide binding]; DNA binding site 204773006753 FCD domain; Region: FCD; pfam07729 204773006754 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 204773006755 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 204773006756 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 204773006757 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 204773006758 putative substrate translocation pore; other site 204773006759 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 204773006760 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 204773006761 Walker A/P-loop; other site 204773006762 ATP binding site [chemical binding]; other site 204773006763 Q-loop/lid; other site 204773006764 ABC transporter signature motif; other site 204773006765 Walker B; other site 204773006766 D-loop; other site 204773006767 H-loop/switch region; other site 204773006768 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 204773006769 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 204773006770 Walker A/P-loop; other site 204773006771 ATP binding site [chemical binding]; other site 204773006772 Q-loop/lid; other site 204773006773 ABC transporter signature motif; other site 204773006774 Walker B; other site 204773006775 D-loop; other site 204773006776 H-loop/switch region; other site 204773006777 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 204773006778 TM-ABC transporter signature motif; other site 204773006779 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 204773006780 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 204773006781 TM-ABC transporter signature motif; other site 204773006782 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 204773006783 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 204773006784 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 204773006785 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 204773006786 hypothetical protein; Reviewed; Region: PRK00024 204773006787 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 204773006788 MPN+ (JAMM) motif; other site 204773006789 Zinc-binding site [ion binding]; other site 204773006790 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 204773006791 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 204773006792 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 204773006793 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 204773006794 Fatty acid desaturase; Region: FA_desaturase; pfam00487 204773006795 Di-iron ligands [ion binding]; other site 204773006796 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 204773006797 Transposase; Region: DDE_Tnp_ISL3; pfam01610 204773006798 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 204773006799 Mechanosensitive ion channel; Region: MS_channel; pfam00924 204773006800 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 204773006801 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 204773006802 S-adenosylmethionine binding site [chemical binding]; other site 204773006803 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 204773006804 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 204773006805 active site 204773006806 substrate binding site [chemical binding]; other site 204773006807 cosubstrate binding site; other site 204773006808 catalytic site [active] 204773006809 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 204773006810 putative RNAase interaction site [polypeptide binding]; other site 204773006811 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate...; Region: RNase_Sa; cd00607 204773006812 active site 204773006813 barstar interaction site; other site 204773006814 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 204773006815 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 204773006816 active site 204773006817 nucleophile elbow; other site 204773006818 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 204773006819 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 204773006820 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 204773006821 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 204773006822 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 204773006823 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 204773006824 L-lactate permease; Region: Lactate_perm; cl00701 204773006825 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 204773006826 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 204773006827 adenylate kinase; Reviewed; Region: adk; PRK00279 204773006828 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 204773006829 AMP-binding site [chemical binding]; other site 204773006830 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 204773006831 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 204773006832 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 204773006833 Ligand binding site; other site 204773006834 oligomer interface; other site 204773006835 Uncharacterized conserved protein [Function unknown]; Region: COG2835 204773006836 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 204773006837 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 204773006838 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 204773006839 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 204773006840 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 204773006841 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 204773006842 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 204773006843 Walker A motif; other site 204773006844 ATP binding site [chemical binding]; other site 204773006845 Walker B motif; other site 204773006846 arginine finger; other site 204773006847 Predicted permeases [General function prediction only]; Region: RarD; COG2962 204773006848 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 204773006849 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 204773006850 generic binding surface II; other site 204773006851 generic binding surface I; other site 204773006852 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 204773006853 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 204773006854 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 204773006855 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 204773006856 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 204773006857 sulfate transport protein; Provisional; Region: cysT; CHL00187 204773006858 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 204773006859 dimer interface [polypeptide binding]; other site 204773006860 conserved gate region; other site 204773006861 putative PBP binding loops; other site 204773006862 ABC-ATPase subunit interface; other site 204773006863 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 204773006864 dimer interface [polypeptide binding]; other site 204773006865 conserved gate region; other site 204773006866 putative PBP binding loops; other site 204773006867 ABC-ATPase subunit interface; other site 204773006868 hypothetical protein; Provisional; Region: PRK06185 204773006869 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 204773006870 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 204773006871 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 204773006872 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204773006873 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 204773006874 putative dimerization interface [polypeptide binding]; other site 204773006875 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 204773006876 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 204773006877 active site clefts [active] 204773006878 zinc binding site [ion binding]; other site 204773006879 dimer interface [polypeptide binding]; other site 204773006880 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 204773006881 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 204773006882 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 204773006883 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 204773006884 S-adenosylmethionine binding site [chemical binding]; other site 204773006885 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 204773006886 GIY-YIG motif/motif A; other site 204773006887 putative active site [active] 204773006888 putative metal binding site [ion binding]; other site 204773006889 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 204773006890 Cytochrome c; Region: Cytochrom_C; pfam00034 204773006891 Methyltransferase domain; Region: Methyltransf_32; pfam13679 204773006892 Methyltransferase domain; Region: Methyltransf_31; pfam13847 204773006893 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 204773006894 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 204773006895 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 204773006896 Surface antigen; Region: Bac_surface_Ag; pfam01103 204773006897 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 204773006898 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 204773006899 substrate binding site [chemical binding]; other site 204773006900 activation loop (A-loop); other site 204773006901 Family of unknown function (DUF490); Region: DUF490; pfam04357 204773006902 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 204773006903 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 204773006904 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 204773006905 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 204773006906 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 204773006907 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 204773006908 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 204773006909 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 204773006910 Walker A motif; other site 204773006911 ATP binding site [chemical binding]; other site 204773006912 Walker B motif; other site 204773006913 arginine finger; other site 204773006914 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 204773006915 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 204773006916 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773006917 active site 204773006918 phosphorylation site [posttranslational modification] 204773006919 intermolecular recognition site; other site 204773006920 dimerization interface [polypeptide binding]; other site 204773006921 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 204773006922 DNA binding residues [nucleotide binding] 204773006923 dimerization interface [polypeptide binding]; other site 204773006924 Response regulator receiver domain; Region: Response_reg; pfam00072 204773006925 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773006926 active site 204773006927 phosphorylation site [posttranslational modification] 204773006928 intermolecular recognition site; other site 204773006929 dimerization interface [polypeptide binding]; other site 204773006930 PAS fold; Region: PAS_4; pfam08448 204773006931 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 204773006932 putative active site [active] 204773006933 heme pocket [chemical binding]; other site 204773006934 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 204773006935 Histidine kinase; Region: HisKA_3; pfam07730 204773006936 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773006937 ATP binding site [chemical binding]; other site 204773006938 Mg2+ binding site [ion binding]; other site 204773006939 G-X-G motif; other site 204773006940 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 204773006941 CsbD-like; Region: CsbD; cl17424 204773006942 fumarate hydratase; Reviewed; Region: fumC; PRK00485 204773006943 Class II fumarases; Region: Fumarase_classII; cd01362 204773006944 active site 204773006945 tetramer interface [polypeptide binding]; other site 204773006946 Protein of unknown function, DUF599; Region: DUF599; cl01575 204773006947 Dodecin; Region: Dodecin; cl01328 204773006948 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 204773006949 active site 204773006950 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 204773006951 Erythromycin esterase; Region: Erythro_esteras; pfam05139 204773006952 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 204773006953 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 204773006954 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 204773006955 catalytic residues [active] 204773006956 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 204773006957 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 204773006958 putative substrate translocation pore; other site 204773006959 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 204773006960 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 204773006961 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 204773006962 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 204773006963 active site 204773006964 FMN binding site [chemical binding]; other site 204773006965 substrate binding site [chemical binding]; other site 204773006966 homotetramer interface [polypeptide binding]; other site 204773006967 catalytic residue [active] 204773006968 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 204773006969 putative FMN binding site [chemical binding]; other site 204773006970 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 204773006971 Flagellin N-methylase; Region: FliB; pfam03692 204773006972 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 204773006973 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 204773006974 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 204773006975 Zn2+ binding site [ion binding]; other site 204773006976 Mg2+ binding site [ion binding]; other site 204773006977 Integrase core domain; Region: rve_3; pfam13683 204773006978 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 204773006979 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 204773006980 oligomerisation interface [polypeptide binding]; other site 204773006981 mobile loop; other site 204773006982 roof hairpin; other site 204773006983 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 204773006984 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 204773006985 ring oligomerisation interface [polypeptide binding]; other site 204773006986 ATP/Mg binding site [chemical binding]; other site 204773006987 stacking interactions; other site 204773006988 hinge regions; other site 204773006989 BCCT family transporter; Region: BCCT; pfam02028 204773006990 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 204773006991 Major Facilitator Superfamily; Region: MFS_1; pfam07690 204773006992 putative substrate translocation pore; other site 204773006993 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 204773006994 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 204773006995 trimer interface [polypeptide binding]; other site 204773006996 eyelet of channel; other site 204773006997 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 204773006998 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 204773006999 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 204773007000 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 204773007001 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 204773007002 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 204773007003 Cytochrome c; Region: Cytochrom_C; pfam00034 204773007004 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 204773007005 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 204773007006 GTP/Mg2+ binding site [chemical binding]; other site 204773007007 G4 box; other site 204773007008 G5 box; other site 204773007009 G1 box; other site 204773007010 Switch I region; other site 204773007011 G2 box; other site 204773007012 G3 box; other site 204773007013 Switch II region; other site 204773007014 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 204773007015 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 204773007016 oligomer interface [polypeptide binding]; other site 204773007017 Cl binding site [ion binding]; other site 204773007018 MoxR-like ATPases [General function prediction only]; Region: COG0714 204773007019 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 204773007020 Walker A motif; other site 204773007021 ATP binding site [chemical binding]; other site 204773007022 Walker B motif; other site 204773007023 arginine finger; other site 204773007024 Protein of unknown function DUF58; Region: DUF58; pfam01882 204773007025 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 204773007026 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 204773007027 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 204773007028 Transglycosylase SLT domain; Region: SLT_2; pfam13406 204773007029 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 204773007030 N-acetyl-D-glucosamine binding site [chemical binding]; other site 204773007031 YaeQ protein; Region: YaeQ; pfam07152 204773007032 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 204773007033 cysteine synthase B; Region: cysM; TIGR01138 204773007034 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 204773007035 dimer interface [polypeptide binding]; other site 204773007036 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204773007037 catalytic residue [active] 204773007038 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 204773007039 tetratricopeptide repeat protein; Provisional; Region: PRK11788 204773007040 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 204773007041 binding surface 204773007042 TPR motif; other site 204773007043 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 204773007044 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 204773007045 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 204773007046 IHF dimer interface [polypeptide binding]; other site 204773007047 IHF - DNA interface [nucleotide binding]; other site 204773007048 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 204773007049 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 204773007050 RNA binding site [nucleotide binding]; other site 204773007051 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 204773007052 RNA binding site [nucleotide binding]; other site 204773007053 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 204773007054 RNA binding site [nucleotide binding]; other site 204773007055 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 204773007056 RNA binding site [nucleotide binding]; other site 204773007057 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 204773007058 RNA binding site [nucleotide binding]; other site 204773007059 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 204773007060 RNA binding site [nucleotide binding]; other site 204773007061 cytidylate kinase; Provisional; Region: cmk; PRK00023 204773007062 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 204773007063 CMP-binding site; other site 204773007064 The sites determining sugar specificity; other site 204773007065 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 204773007066 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 204773007067 hinge; other site 204773007068 active site 204773007069 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 204773007070 prephenate dehydrogenase; Validated; Region: PRK08507 204773007071 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 204773007072 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 204773007073 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204773007074 homodimer interface [polypeptide binding]; other site 204773007075 catalytic residue [active] 204773007076 Chorismate mutase type II; Region: CM_2; smart00830 204773007077 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 204773007078 Prephenate dehydratase; Region: PDT; pfam00800 204773007079 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 204773007080 putative L-Phe binding site [chemical binding]; other site 204773007081 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 204773007082 homodimer interface [polypeptide binding]; other site 204773007083 substrate-cofactor binding pocket; other site 204773007084 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204773007085 catalytic residue [active] 204773007086 DNA gyrase subunit A; Validated; Region: PRK05560 204773007087 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 204773007088 CAP-like domain; other site 204773007089 active site 204773007090 primary dimer interface [polypeptide binding]; other site 204773007091 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 204773007092 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 204773007093 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 204773007094 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 204773007095 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 204773007096 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 204773007097 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 204773007098 ligand binding site [chemical binding]; other site 204773007099 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 204773007100 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 204773007101 ligand binding site [chemical binding]; other site 204773007102 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 204773007103 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 204773007104 S-adenosylmethionine binding site [chemical binding]; other site 204773007105 phosphoglycolate phosphatase; Provisional; Region: PRK13222 204773007106 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 204773007107 motif II; other site 204773007108 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 204773007109 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 204773007110 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 204773007111 dimerization interface [polypeptide binding]; other site 204773007112 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 204773007113 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 204773007114 dimer interface [polypeptide binding]; other site 204773007115 putative CheW interface [polypeptide binding]; other site 204773007116 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 204773007117 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 204773007118 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 204773007119 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 204773007120 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 204773007121 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 204773007122 Walker A/P-loop; other site 204773007123 ATP binding site [chemical binding]; other site 204773007124 Q-loop/lid; other site 204773007125 ABC transporter signature motif; other site 204773007126 Walker B; other site 204773007127 D-loop; other site 204773007128 H-loop/switch region; other site 204773007129 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 204773007130 Walker A/P-loop; other site 204773007131 ATP binding site [chemical binding]; other site 204773007132 Q-loop/lid; other site 204773007133 ABC transporter signature motif; other site 204773007134 Walker B; other site 204773007135 D-loop; other site 204773007136 H-loop/switch region; other site 204773007137 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 204773007138 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 204773007139 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 204773007140 HlyD family secretion protein; Region: HlyD_3; pfam13437 204773007141 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 204773007142 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 204773007143 putative active site [active] 204773007144 YdjC motif; other site 204773007145 Mg binding site [ion binding]; other site 204773007146 putative homodimer interface [polypeptide binding]; other site 204773007147 Predicted membrane protein [Function unknown]; Region: COG2246 204773007148 GtrA-like protein; Region: GtrA; pfam04138 204773007149 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 204773007150 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 204773007151 Ligand binding site; other site 204773007152 Putative Catalytic site; other site 204773007153 DXD motif; other site 204773007154 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 204773007155 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 204773007156 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 204773007157 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 204773007158 Hemerythrin-like domain; Region: Hr-like; cd12108 204773007159 Fe binding site [ion binding]; other site 204773007160 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 204773007161 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 204773007162 putative ATP binding site [chemical binding]; other site 204773007163 putative substrate interface [chemical binding]; other site 204773007164 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 204773007165 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 204773007166 active site 204773007167 methionine sulfoxide reductase A; Provisional; Region: PRK14054 204773007168 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 204773007169 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 204773007170 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 204773007171 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 204773007172 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 204773007173 ATP-grasp domain; Region: ATP-grasp; pfam02222 204773007174 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 204773007175 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 204773007176 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 204773007177 ATP binding site [chemical binding]; other site 204773007178 active site 204773007179 substrate binding site [chemical binding]; other site 204773007180 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 204773007181 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 204773007182 intersubunit interface [polypeptide binding]; other site 204773007183 active site 204773007184 zinc binding site [ion binding]; other site 204773007185 Na+ binding site [ion binding]; other site 204773007186 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 204773007187 Phosphoglycerate kinase; Region: PGK; pfam00162 204773007188 substrate binding site [chemical binding]; other site 204773007189 hinge regions; other site 204773007190 ADP binding site [chemical binding]; other site 204773007191 catalytic site [active] 204773007192 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 204773007193 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 204773007194 homodimer interface [polypeptide binding]; other site 204773007195 substrate-cofactor binding pocket; other site 204773007196 catalytic residue [active] 204773007197 Zinc-finger domain; Region: zf-CHCC; cl01821 204773007198 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 204773007199 SnoaL-like domain; Region: SnoaL_3; pfam13474 204773007200 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 204773007201 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 204773007202 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 204773007203 Peptidase family M48; Region: Peptidase_M48; pfam01435 204773007204 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 204773007205 trimer interface [polypeptide binding]; other site 204773007206 dimer interface [polypeptide binding]; other site 204773007207 putative active site [active] 204773007208 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 204773007209 binding surface 204773007210 TPR repeat; Region: TPR_11; pfam13414 204773007211 TPR motif; other site 204773007212 Pilin (bacterial filament); Region: Pilin; pfam00114 204773007213 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 204773007214 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 204773007215 phosphopeptide binding site; other site 204773007216 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 204773007217 Protein phosphatase 2C; Region: PP2C; pfam00481 204773007218 active site 204773007219 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 204773007220 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 204773007221 putative active site [active] 204773007222 Zn binding site [ion binding]; other site 204773007223 RecX family; Region: RecX; cl00936 204773007224 recombinase A; Provisional; Region: recA; PRK09354 204773007225 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 204773007226 hexamer interface [polypeptide binding]; other site 204773007227 Walker A motif; other site 204773007228 ATP binding site [chemical binding]; other site 204773007229 Walker B motif; other site 204773007230 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 204773007231 RNA/DNA hybrid binding site [nucleotide binding]; other site 204773007232 active site 204773007233 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 204773007234 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773007235 active site 204773007236 phosphorylation site [posttranslational modification] 204773007237 intermolecular recognition site; other site 204773007238 dimerization interface [polypeptide binding]; other site 204773007239 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 204773007240 DNA binding site [nucleotide binding] 204773007241 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 204773007242 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 204773007243 HAMP domain; Region: HAMP; pfam00672 204773007244 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 204773007245 dimer interface [polypeptide binding]; other site 204773007246 phosphorylation site [posttranslational modification] 204773007247 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773007248 ATP binding site [chemical binding]; other site 204773007249 Mg2+ binding site [ion binding]; other site 204773007250 G-X-G motif; other site 204773007251 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 204773007252 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 204773007253 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 204773007254 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 204773007255 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 204773007256 dimerization interface [polypeptide binding]; other site 204773007257 putative ATP binding site [chemical binding]; other site 204773007258 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 204773007259 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 204773007260 Walker A motif; other site 204773007261 ATP binding site [chemical binding]; other site 204773007262 Walker B motif; other site 204773007263 arginine finger; other site 204773007264 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 204773007265 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 204773007266 poly(A) polymerase; Region: pcnB; TIGR01942 204773007267 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 204773007268 active site 204773007269 NTP binding site [chemical binding]; other site 204773007270 metal binding triad [ion binding]; metal-binding site 204773007271 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 204773007272 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 204773007273 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 204773007274 catalytic center binding site [active] 204773007275 ATP binding site [chemical binding]; other site 204773007276 Protein of unknown function, DUF486; Region: DUF486; cl01236 204773007277 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 204773007278 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 204773007279 Substrate-binding site [chemical binding]; other site 204773007280 Substrate specificity [chemical binding]; other site 204773007281 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 204773007282 oligomerization interface [polypeptide binding]; other site 204773007283 active site 204773007284 metal binding site [ion binding]; metal-binding site 204773007285 Chorismate mutase type II; Region: CM_2; cl00693 204773007286 Predicted metalloprotease [General function prediction only]; Region: COG2321 204773007287 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 204773007288 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 204773007289 active site clefts [active] 204773007290 zinc binding site [ion binding]; other site 204773007291 dimer interface [polypeptide binding]; other site 204773007292 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 204773007293 chaperone protein DnaJ; Provisional; Region: PRK10767 204773007294 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 204773007295 HSP70 interaction site [polypeptide binding]; other site 204773007296 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 204773007297 Zn binding sites [ion binding]; other site 204773007298 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 204773007299 dimer interface [polypeptide binding]; other site 204773007300 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 204773007301 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 204773007302 nucleotide binding site [chemical binding]; other site 204773007303 GrpE; Region: GrpE; pfam01025 204773007304 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 204773007305 dimer interface [polypeptide binding]; other site 204773007306 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 204773007307 ferrochelatase; Reviewed; Region: hemH; PRK00035 204773007308 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 204773007309 C-terminal domain interface [polypeptide binding]; other site 204773007310 active site 204773007311 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 204773007312 active site 204773007313 N-terminal domain interface [polypeptide binding]; other site 204773007314 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 204773007315 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 204773007316 Walker A/P-loop; other site 204773007317 ATP binding site [chemical binding]; other site 204773007318 Q-loop/lid; other site 204773007319 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 204773007320 ABC transporter signature motif; other site 204773007321 Walker B; other site 204773007322 D-loop; other site 204773007323 H-loop/switch region; other site 204773007324 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 204773007325 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 204773007326 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 204773007327 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 204773007328 motif II; other site 204773007329 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 204773007330 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 204773007331 ferric uptake regulator; Provisional; Region: fur; PRK09462 204773007332 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 204773007333 metal binding site 2 [ion binding]; metal-binding site 204773007334 putative DNA binding helix; other site 204773007335 metal binding site 1 [ion binding]; metal-binding site 204773007336 dimer interface [polypeptide binding]; other site 204773007337 structural Zn2+ binding site [ion binding]; other site 204773007338 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 204773007339 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 204773007340 dihydrodipicolinate reductase; Provisional; Region: PRK00048 204773007341 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 204773007342 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 204773007343 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 204773007344 TolR protein; Region: tolR; TIGR02801 204773007345 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 204773007346 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it, thus inhibiting its potentially lethal RNase activity inside the...; Region: Barstar_like; cd00489 204773007347 RNAase interaction site [polypeptide binding]; other site 204773007348 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 204773007349 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 204773007350 HIGH motif; other site 204773007351 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 204773007352 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 204773007353 active site 204773007354 KMSKS motif; other site 204773007355 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 204773007356 tRNA binding surface [nucleotide binding]; other site 204773007357 Lipopolysaccharide-assembly; Region: LptE; cl01125 204773007358 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 204773007359 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 204773007360 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 204773007361 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 204773007362 putative catalytic cysteine [active] 204773007363 Predicted membrane protein [Function unknown]; Region: COG1981 204773007364 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 204773007365 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 204773007366 putative catalytic residue [active] 204773007367 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 204773007368 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 204773007369 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 204773007370 succinic semialdehyde dehydrogenase; Region: PLN02278 204773007371 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 204773007372 tetramerization interface [polypeptide binding]; other site 204773007373 NAD(P) binding site [chemical binding]; other site 204773007374 catalytic residues [active] 204773007375 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 204773007376 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 204773007377 putative substrate translocation pore; other site 204773007378 PAS domain S-box; Region: sensory_box; TIGR00229 204773007379 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 204773007380 putative active site [active] 204773007381 heme pocket [chemical binding]; other site 204773007382 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773007383 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773007384 metal binding site [ion binding]; metal-binding site 204773007385 active site 204773007386 I-site; other site 204773007387 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 204773007388 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 204773007389 putative amidase; Provisional; Region: PRK06169 204773007390 Amidase; Region: Amidase; pfam01425 204773007391 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 204773007392 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 204773007393 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 204773007394 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 204773007395 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 204773007396 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 204773007397 Walker A/P-loop; other site 204773007398 ATP binding site [chemical binding]; other site 204773007399 Q-loop/lid; other site 204773007400 ABC transporter signature motif; other site 204773007401 Walker B; other site 204773007402 D-loop; other site 204773007403 H-loop/switch region; other site 204773007404 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 204773007405 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 204773007406 TM-ABC transporter signature motif; other site 204773007407 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 204773007408 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 204773007409 Walker A/P-loop; other site 204773007410 ATP binding site [chemical binding]; other site 204773007411 Q-loop/lid; other site 204773007412 ABC transporter signature motif; other site 204773007413 Walker B; other site 204773007414 D-loop; other site 204773007415 H-loop/switch region; other site 204773007416 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 204773007417 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 204773007418 TM-ABC transporter signature motif; other site 204773007419 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_2; cd06335 204773007420 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 204773007421 putative ligand binding site [chemical binding]; other site 204773007422 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 204773007423 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 204773007424 Bacterial transcriptional regulator; Region: IclR; pfam01614 204773007425 PAS domain; Region: PAS; smart00091 204773007426 PAS fold; Region: PAS_4; pfam08448 204773007427 putative active site [active] 204773007428 heme pocket [chemical binding]; other site 204773007429 Patatin-like phospholipase; Region: Patatin; pfam01734 204773007430 active site 204773007431 nucleophile elbow; other site 204773007432 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 204773007433 Ligand Binding Site [chemical binding]; other site 204773007434 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 204773007435 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 204773007436 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 204773007437 dimer interface [polypeptide binding]; other site 204773007438 phosphorylation site [posttranslational modification] 204773007439 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773007440 ATP binding site [chemical binding]; other site 204773007441 Mg2+ binding site [ion binding]; other site 204773007442 G-X-G motif; other site 204773007443 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 204773007444 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773007445 active site 204773007446 phosphorylation site [posttranslational modification] 204773007447 intermolecular recognition site; other site 204773007448 dimerization interface [polypeptide binding]; other site 204773007449 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 204773007450 DNA binding site [nucleotide binding] 204773007451 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 204773007452 PAS fold; Region: PAS_3; pfam08447 204773007453 putative active site [active] 204773007454 heme pocket [chemical binding]; other site 204773007455 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773007456 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773007457 metal binding site [ion binding]; metal-binding site 204773007458 active site 204773007459 I-site; other site 204773007460 YceI-like domain; Region: YceI; smart00867 204773007461 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_11; cd08866 204773007462 putative hydrophobic ligand binding site [chemical binding]; other site 204773007463 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 204773007464 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 204773007465 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 204773007466 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773007467 active site 204773007468 phosphorylation site [posttranslational modification] 204773007469 intermolecular recognition site; other site 204773007470 dimerization interface [polypeptide binding]; other site 204773007471 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 204773007472 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 204773007473 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 204773007474 dimer interface [polypeptide binding]; other site 204773007475 phosphorylation site [posttranslational modification] 204773007476 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773007477 ATP binding site [chemical binding]; other site 204773007478 Mg2+ binding site [ion binding]; other site 204773007479 G-X-G motif; other site 204773007480 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 204773007481 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 204773007482 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 204773007483 Subunit I/III interface [polypeptide binding]; other site 204773007484 Subunit III/IV interface [polypeptide binding]; other site 204773007485 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 204773007486 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 204773007487 D-pathway; other site 204773007488 Putative ubiquinol binding site [chemical binding]; other site 204773007489 Low-spin heme (heme b) binding site [chemical binding]; other site 204773007490 Putative water exit pathway; other site 204773007491 Binuclear center (heme o3/CuB) [ion binding]; other site 204773007492 K-pathway; other site 204773007493 Putative proton exit pathway; other site 204773007494 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 204773007495 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 204773007496 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 204773007497 metabolite-proton symporter; Region: 2A0106; TIGR00883 204773007498 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 204773007499 putative substrate translocation pore; other site 204773007500 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 204773007501 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 204773007502 ATP binding site [chemical binding]; other site 204773007503 putative Mg++ binding site [ion binding]; other site 204773007504 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 204773007505 nucleotide binding region [chemical binding]; other site 204773007506 ATP-binding site [chemical binding]; other site 204773007507 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 204773007508 HRDC domain; Region: HRDC; pfam00570 204773007509 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 204773007510 Flagellin N-methylase; Region: FliB; cl00497 204773007511 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 204773007512 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 204773007513 S-adenosylmethionine binding site [chemical binding]; other site 204773007514 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 204773007515 active site residue [active] 204773007516 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 204773007517 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 204773007518 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 204773007519 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 204773007520 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 204773007521 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 204773007522 HlyD family secretion protein; Region: HlyD_3; pfam13437 204773007523 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 204773007524 Protein export membrane protein; Region: SecD_SecF; cl14618 204773007525 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 204773007526 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 204773007527 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 204773007528 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 204773007529 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 204773007530 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 204773007531 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 204773007532 active site 204773007533 substrate binding site [chemical binding]; other site 204773007534 metal binding site [ion binding]; metal-binding site 204773007535 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 204773007536 CoA-transferase family III; Region: CoA_transf_3; pfam02515 204773007537 enoyl-CoA hydratase; Provisional; Region: PRK06144 204773007538 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 204773007539 substrate binding site [chemical binding]; other site 204773007540 oxyanion hole (OAH) forming residues; other site 204773007541 trimer interface [polypeptide binding]; other site 204773007542 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 204773007543 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 204773007544 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 204773007545 dimer interface [polypeptide binding]; other site 204773007546 active site 204773007547 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 204773007548 substrate binding site [chemical binding]; other site 204773007549 catalytic residue [active] 204773007550 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 204773007551 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 204773007552 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 204773007553 Transcriptional regulators [Transcription]; Region: GntR; COG1802 204773007554 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204773007555 DNA-binding site [nucleotide binding]; DNA binding site 204773007556 FCD domain; Region: FCD; pfam07729 204773007557 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 204773007558 homodimer interface [polypeptide binding]; other site 204773007559 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204773007560 catalytic residue [active] 204773007561 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 204773007562 FAD binding domain; Region: FAD_binding_4; pfam01565 204773007563 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 204773007564 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 204773007565 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 204773007566 active site 204773007567 metal binding site [ion binding]; metal-binding site 204773007568 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 204773007569 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 204773007570 putative acyl-acceptor binding pocket; other site 204773007571 dihydroorotase; Provisional; Region: PRK07627 204773007572 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 204773007573 active site 204773007574 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 204773007575 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 204773007576 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 204773007577 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 204773007578 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 204773007579 active site 204773007580 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 204773007581 hypothetical protein; Validated; Region: PRK00228 204773007582 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 204773007583 DNA photolyase; Region: DNA_photolyase; pfam00875 204773007584 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 204773007585 putative binding surface; other site 204773007586 active site 204773007587 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 204773007588 putative binding surface; other site 204773007589 active site 204773007590 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 204773007591 putative binding surface; other site 204773007592 active site 204773007593 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 204773007594 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 204773007595 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773007596 ATP binding site [chemical binding]; other site 204773007597 Mg2+ binding site [ion binding]; other site 204773007598 G-X-G motif; other site 204773007599 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 204773007600 Response regulator receiver domain; Region: Response_reg; pfam00072 204773007601 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773007602 active site 204773007603 phosphorylation site [posttranslational modification] 204773007604 intermolecular recognition site; other site 204773007605 dimerization interface [polypeptide binding]; other site 204773007606 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 204773007607 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 204773007608 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 204773007609 dimer interface [polypeptide binding]; other site 204773007610 putative CheW interface [polypeptide binding]; other site 204773007611 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 204773007612 Response regulator receiver domain; Region: Response_reg; pfam00072 204773007613 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773007614 active site 204773007615 phosphorylation site [posttranslational modification] 204773007616 intermolecular recognition site; other site 204773007617 dimerization interface [polypeptide binding]; other site 204773007618 Response regulator receiver domain; Region: Response_reg; pfam00072 204773007619 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773007620 active site 204773007621 phosphorylation site [posttranslational modification] 204773007622 intermolecular recognition site; other site 204773007623 dimerization interface [polypeptide binding]; other site 204773007624 Rubredoxin [Energy production and conversion]; Region: COG1773 204773007625 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 204773007626 iron binding site [ion binding]; other site 204773007627 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 204773007628 substrate binding site [chemical binding]; other site 204773007629 dimer interface [polypeptide binding]; other site 204773007630 ATP binding site [chemical binding]; other site 204773007631 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 204773007632 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 204773007633 inhibitor-cofactor binding pocket; inhibition site 204773007634 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204773007635 catalytic residue [active] 204773007636 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 204773007637 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 204773007638 Cl binding site [ion binding]; other site 204773007639 oligomer interface [polypeptide binding]; other site 204773007640 Transglycosylase; Region: Transgly; cl17702 204773007641 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 204773007642 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 204773007643 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 204773007644 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 204773007645 shikimate binding site; other site 204773007646 NAD(P) binding site [chemical binding]; other site 204773007647 TonB C terminal; Region: TonB_2; pfam13103 204773007648 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 204773007649 RNB domain; Region: RNB; pfam00773 204773007650 Chorismate lyase; Region: Chor_lyase; cl01230 204773007651 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 204773007652 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 204773007653 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 204773007654 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 204773007655 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 204773007656 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 204773007657 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 204773007658 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 204773007659 catalytic residues [active] 204773007660 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 204773007661 Dehydroquinase class II; Region: DHquinase_II; pfam01220 204773007662 active site 204773007663 trimer interface [polypeptide binding]; other site 204773007664 dimer interface [polypeptide binding]; other site 204773007665 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 204773007666 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 204773007667 carboxyltransferase (CT) interaction site; other site 204773007668 biotinylation site [posttranslational modification]; other site 204773007669 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 204773007670 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 204773007671 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 204773007672 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 204773007673 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 204773007674 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 204773007675 S-adenosylmethionine binding site [chemical binding]; other site 204773007676 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 204773007677 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 204773007678 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 204773007679 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 204773007680 substrate binding site [chemical binding]; other site 204773007681 ATP binding site [chemical binding]; other site 204773007682 YGGT family; Region: YGGT; pfam02325 204773007683 YGGT family; Region: YGGT; pfam02325 204773007684 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 204773007685 dimer interface [polypeptide binding]; other site 204773007686 putative radical transfer pathway; other site 204773007687 diiron center [ion binding]; other site 204773007688 tyrosyl radical; other site 204773007689 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 204773007690 ATP cone domain; Region: ATP-cone; pfam03477 204773007691 ATP cone domain; Region: ATP-cone; pfam03477 204773007692 Class I ribonucleotide reductase; Region: RNR_I; cd01679 204773007693 active site 204773007694 dimer interface [polypeptide binding]; other site 204773007695 catalytic residues [active] 204773007696 effector binding site; other site 204773007697 R2 peptide binding site; other site 204773007698 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 204773007699 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 204773007700 amidase catalytic site [active] 204773007701 Zn binding residues [ion binding]; other site 204773007702 substrate binding site [chemical binding]; other site 204773007703 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 204773007704 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773007705 active site 204773007706 phosphorylation site [posttranslational modification] 204773007707 intermolecular recognition site; other site 204773007708 dimerization interface [polypeptide binding]; other site 204773007709 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 204773007710 Walker A motif; other site 204773007711 ATP binding site [chemical binding]; other site 204773007712 Walker B motif; other site 204773007713 arginine finger; other site 204773007714 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 204773007715 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 204773007716 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 204773007717 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 204773007718 dimer interface [polypeptide binding]; other site 204773007719 phosphorylation site [posttranslational modification] 204773007720 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773007721 ATP binding site [chemical binding]; other site 204773007722 Mg2+ binding site [ion binding]; other site 204773007723 G-X-G motif; other site 204773007724 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 204773007725 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 204773007726 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 204773007727 P loop; other site 204773007728 GTP binding site [chemical binding]; other site 204773007729 Signal peptide binding domain; Region: SRP_SPB; pfam02978 204773007730 SWIB/MDM2 domain; Region: SWIB; pfam02201 204773007731 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 204773007732 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 204773007733 N-acetyl-D-glucosamine binding site [chemical binding]; other site 204773007734 catalytic residue [active] 204773007735 prolyl-tRNA synthetase; Provisional; Region: PRK09194 204773007736 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 204773007737 dimer interface [polypeptide binding]; other site 204773007738 motif 1; other site 204773007739 active site 204773007740 motif 2; other site 204773007741 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 204773007742 putative deacylase active site [active] 204773007743 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 204773007744 active site 204773007745 motif 3; other site 204773007746 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 204773007747 anticodon binding site; other site 204773007748 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 204773007749 putative active site [active] 204773007750 Ap4A binding site [chemical binding]; other site 204773007751 nudix motif; other site 204773007752 putative metal binding site [ion binding]; other site 204773007753 CNP1-like family; Region: CNP1; pfam08750 204773007754 gamma-glutamyl kinase; Provisional; Region: PRK05429 204773007755 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 204773007756 nucleotide binding site [chemical binding]; other site 204773007757 homotetrameric interface [polypeptide binding]; other site 204773007758 putative phosphate binding site [ion binding]; other site 204773007759 putative allosteric binding site; other site 204773007760 PUA domain; Region: PUA; pfam01472 204773007761 GTPase CgtA; Reviewed; Region: obgE; PRK12299 204773007762 GTP1/OBG; Region: GTP1_OBG; pfam01018 204773007763 Obg GTPase; Region: Obg; cd01898 204773007764 G1 box; other site 204773007765 GTP/Mg2+ binding site [chemical binding]; other site 204773007766 Switch I region; other site 204773007767 G2 box; other site 204773007768 G3 box; other site 204773007769 Switch II region; other site 204773007770 G4 box; other site 204773007771 G5 box; other site 204773007772 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 204773007773 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 204773007774 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 204773007775 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 204773007776 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 204773007777 substrate binding pocket [chemical binding]; other site 204773007778 chain length determination region; other site 204773007779 substrate-Mg2+ binding site; other site 204773007780 catalytic residues [active] 204773007781 aspartate-rich region 1; other site 204773007782 active site lid residues [active] 204773007783 aspartate-rich region 2; other site 204773007784 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 204773007785 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 204773007786 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 204773007787 Walker A motif; other site 204773007788 ATP binding site [chemical binding]; other site 204773007789 Walker B motif; other site 204773007790 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 204773007791 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 204773007792 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 204773007793 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 204773007794 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 204773007795 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 204773007796 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 204773007797 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 204773007798 CoA-binding site [chemical binding]; other site 204773007799 ATP-binding [chemical binding]; other site 204773007800 hypothetical protein; Provisional; Region: PRK05287 204773007801 Domain of unknown function (DUF329); Region: DUF329; pfam03884 204773007802 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 204773007803 active site 204773007804 8-oxo-dGMP binding site [chemical binding]; other site 204773007805 nudix motif; other site 204773007806 metal binding site [ion binding]; metal-binding site 204773007807 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 204773007808 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 204773007809 Walker A motif; other site 204773007810 ATP binding site [chemical binding]; other site 204773007811 Walker B motif; other site 204773007812 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 204773007813 heterotetramer interface [polypeptide binding]; other site 204773007814 active site pocket [active] 204773007815 cleavage site 204773007816 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 204773007817 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 204773007818 SEC-C motif; Region: SEC-C; pfam02810 204773007819 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 204773007820 Peptidase family M23; Region: Peptidase_M23; pfam01551 204773007821 Protein of unknown function (DUF721); Region: DUF721; cl02324 204773007822 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 204773007823 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 204773007824 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 204773007825 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 204773007826 catalytic triad [active] 204773007827 dimer interface [polypeptide binding]; other site 204773007828 cell division protein FtsZ; Validated; Region: PRK09330 204773007829 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 204773007830 nucleotide binding site [chemical binding]; other site 204773007831 SulA interaction site; other site 204773007832 cell division protein FtsA; Region: ftsA; TIGR01174 204773007833 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 204773007834 nucleotide binding site [chemical binding]; other site 204773007835 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 204773007836 Cell division protein FtsA; Region: FtsA; pfam14450 204773007837 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 204773007838 Cell division protein FtsQ; Region: FtsQ; pfam03799 204773007839 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 204773007840 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 204773007841 ATP-grasp domain; Region: ATP-grasp_4; cl17255 204773007842 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 204773007843 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 204773007844 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 204773007845 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 204773007846 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 204773007847 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 204773007848 active site 204773007849 homodimer interface [polypeptide binding]; other site 204773007850 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 204773007851 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 204773007852 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 204773007853 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 204773007854 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 204773007855 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 204773007856 Mg++ binding site [ion binding]; other site 204773007857 putative catalytic motif [active] 204773007858 putative substrate binding site [chemical binding]; other site 204773007859 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 204773007860 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 204773007861 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 204773007862 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 204773007863 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 204773007864 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 204773007865 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 204773007866 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 204773007867 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 204773007868 Cell division protein FtsL; Region: FtsL; pfam04999 204773007869 MraW methylase family; Region: Methyltransf_5; cl17771 204773007870 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 204773007871 cell division protein MraZ; Reviewed; Region: PRK00326 204773007872 MraZ protein; Region: MraZ; pfam02381 204773007873 MraZ protein; Region: MraZ; pfam02381 204773007874 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 204773007875 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 204773007876 dimer interface [polypeptide binding]; other site 204773007877 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 204773007878 metal binding site [ion binding]; metal-binding site 204773007879 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 204773007880 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204773007881 DNA-binding site [nucleotide binding]; DNA binding site 204773007882 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 204773007883 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204773007884 homodimer interface [polypeptide binding]; other site 204773007885 catalytic residue [active] 204773007886 Cytochrome c553 [Energy production and conversion]; Region: COG2863 204773007887 Cytochrome c; Region: Cytochrom_C; cl11414 204773007888 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 204773007889 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 204773007890 Cytochrome c; Region: Cytochrom_C; pfam00034 204773007891 LrgB-like family; Region: LrgB; pfam04172 204773007892 LrgA family; Region: LrgA; pfam03788 204773007893 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 204773007894 Beta-lactamase; Region: Beta-lactamase; pfam00144 204773007895 LrgA family; Region: LrgA; pfam03788 204773007896 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 204773007897 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 204773007898 Plant protein of unknown function (DUF641); Region: DUF641; pfam04859 204773007899 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 204773007900 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 204773007901 dimer interface [polypeptide binding]; other site 204773007902 active site 204773007903 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 204773007904 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 204773007905 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 204773007906 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 204773007907 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 204773007908 substrate binding site [chemical binding]; other site 204773007909 oxyanion hole (OAH) forming residues; other site 204773007910 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 204773007911 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 204773007912 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 204773007913 active site 204773007914 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 204773007915 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 204773007916 RNA binding surface [nucleotide binding]; other site 204773007917 HDOD domain; Region: HDOD; pfam08668 204773007918 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 204773007919 putative active site [active] 204773007920 catalytic site [active] 204773007921 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 204773007922 putative active site [active] 204773007923 catalytic site [active] 204773007924 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 204773007925 putative catalytic site [active] 204773007926 putative metal binding site [ion binding]; other site 204773007927 putative phosphate binding site [ion binding]; other site 204773007928 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 204773007929 nudix motif; other site 204773007930 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 204773007931 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 204773007932 dimer interface [polypeptide binding]; other site 204773007933 anticodon binding site; other site 204773007934 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 204773007935 homodimer interface [polypeptide binding]; other site 204773007936 motif 1; other site 204773007937 active site 204773007938 motif 2; other site 204773007939 GAD domain; Region: GAD; pfam02938 204773007940 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 204773007941 motif 3; other site 204773007942 Uncharacterized conserved protein [Function unknown]; Region: COG2928 204773007943 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 204773007944 Uncharacterized conserved protein [Function unknown]; Region: COG1359 204773007945 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 204773007946 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 204773007947 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 204773007948 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 204773007949 dimer interface [polypeptide binding]; other site 204773007950 conserved gate region; other site 204773007951 putative PBP binding loops; other site 204773007952 ABC-ATPase subunit interface; other site 204773007953 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 204773007954 dimer interface [polypeptide binding]; other site 204773007955 conserved gate region; other site 204773007956 putative PBP binding loops; other site 204773007957 ABC-ATPase subunit interface; other site 204773007958 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 204773007959 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204773007960 Walker A/P-loop; other site 204773007961 ATP binding site [chemical binding]; other site 204773007962 Q-loop/lid; other site 204773007963 ABC transporter signature motif; other site 204773007964 Walker B; other site 204773007965 D-loop; other site 204773007966 H-loop/switch region; other site 204773007967 TOBE domain; Region: TOBE_2; pfam08402 204773007968 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 204773007969 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 204773007970 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 204773007971 SCP-2 sterol transfer family; Region: SCP2; pfam02036 204773007972 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 204773007973 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 204773007974 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 204773007975 S-adenosylmethionine binding site [chemical binding]; other site 204773007976 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 204773007977 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 204773007978 nucleotide binding site/active site [active] 204773007979 HIT family signature motif; other site 204773007980 catalytic residue [active] 204773007981 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 204773007982 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 204773007983 FAD binding domain; Region: FAD_binding_4; pfam01565 204773007984 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 204773007985 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 204773007986 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 204773007987 Cysteine-rich domain; Region: CCG; pfam02754 204773007988 Cysteine-rich domain; Region: CCG; pfam02754 204773007989 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 204773007990 Predicted membrane protein [Function unknown]; Region: COG1238 204773007991 threonine dehydratase; Reviewed; Region: PRK09224 204773007992 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 204773007993 tetramer interface [polypeptide binding]; other site 204773007994 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204773007995 catalytic residue [active] 204773007996 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 204773007997 putative Ile/Val binding site [chemical binding]; other site 204773007998 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 204773007999 putative Ile/Val binding site [chemical binding]; other site 204773008000 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 204773008001 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 204773008002 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 204773008003 acyl carrier protein; Provisional; Region: PRK09184 204773008004 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 204773008005 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 204773008006 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 204773008007 acyl-activating enzyme (AAE) consensus motif; other site 204773008008 acyl-activating enzyme (AAE) consensus motif; other site 204773008009 AMP binding site [chemical binding]; other site 204773008010 active site 204773008011 CoA binding site [chemical binding]; other site 204773008012 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 204773008013 active site 2 [active] 204773008014 dimer interface [polypeptide binding]; other site 204773008015 active site 1 [active] 204773008016 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 204773008017 Predicted exporter [General function prediction only]; Region: COG4258 204773008018 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 204773008019 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 204773008020 S-adenosylmethionine binding site [chemical binding]; other site 204773008021 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 204773008022 active site 2 [active] 204773008023 active site 1 [active] 204773008024 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 204773008025 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 204773008026 NAD(P) binding site [chemical binding]; other site 204773008027 active site 204773008028 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 204773008029 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 204773008030 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 204773008031 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_5; cd06153 204773008032 homotrimer interaction site [polypeptide binding]; other site 204773008033 putative active site [active] 204773008034 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 204773008035 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 204773008036 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 204773008037 dimer interface [polypeptide binding]; other site 204773008038 active site 204773008039 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 204773008040 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 204773008041 NodB motif; other site 204773008042 active site 204773008043 catalytic site [active] 204773008044 metal binding site [ion binding]; metal-binding site 204773008045 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 204773008046 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 204773008047 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 204773008048 putative acyl-acceptor binding pocket; other site 204773008049 Predicted membrane protein [Function unknown]; Region: COG4648 204773008050 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 204773008051 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 204773008052 Ligand binding site; other site 204773008053 Putative Catalytic site; other site 204773008054 DXD motif; other site 204773008055 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 204773008056 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 204773008057 putative acyl-acceptor binding pocket; other site 204773008058 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 204773008059 active site 204773008060 phosphorylation site [posttranslational modification] 204773008061 HPr kinase/phosphorylase; Provisional; Region: PRK05428 204773008062 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 204773008063 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 204773008064 Hpr binding site; other site 204773008065 active site 204773008066 homohexamer subunit interaction site [polypeptide binding]; other site 204773008067 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 204773008068 AAA domain; Region: AAA_18; pfam13238 204773008069 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 204773008070 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 204773008071 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 204773008072 minor groove reading motif; other site 204773008073 helix-hairpin-helix signature motif; other site 204773008074 substrate binding pocket [chemical binding]; other site 204773008075 active site 204773008076 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 204773008077 DNA binding and oxoG recognition site [nucleotide binding] 204773008078 Dynamin family; Region: Dynamin_N; pfam00350 204773008079 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 204773008080 G1 box; other site 204773008081 GTP/Mg2+ binding site [chemical binding]; other site 204773008082 G2 box; other site 204773008083 Switch I region; other site 204773008084 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 204773008085 G3 box; other site 204773008086 Switch II region; other site 204773008087 GTP/Mg2+ binding site [chemical binding]; other site 204773008088 G4 box; other site 204773008089 G5 box; other site 204773008090 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 204773008091 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 204773008092 DNA binding site [nucleotide binding] 204773008093 catalytic residue [active] 204773008094 H2TH interface [polypeptide binding]; other site 204773008095 putative catalytic residues [active] 204773008096 turnover-facilitating residue; other site 204773008097 intercalation triad [nucleotide binding]; other site 204773008098 8OG recognition residue [nucleotide binding]; other site 204773008099 putative reading head residues; other site 204773008100 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 204773008101 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 204773008102 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 204773008103 TPR motif; other site 204773008104 binding surface 204773008105 Tetratricopeptide repeat; Region: TPR_16; pfam13432 204773008106 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 204773008107 TPR motif; other site 204773008108 binding surface 204773008109 TPR repeat; Region: TPR_11; pfam13414 204773008110 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 204773008111 binding surface 204773008112 TPR repeat; Region: TPR_11; pfam13414 204773008113 TPR motif; other site 204773008114 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 204773008115 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 204773008116 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 204773008117 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 204773008118 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 204773008119 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 204773008120 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 204773008121 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 204773008122 active site 204773008123 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 204773008124 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 204773008125 5S rRNA interface [nucleotide binding]; other site 204773008126 CTC domain interface [polypeptide binding]; other site 204773008127 L16 interface [polypeptide binding]; other site 204773008128 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 204773008129 putative active site [active] 204773008130 catalytic residue [active] 204773008131 GTP-binding protein YchF; Reviewed; Region: PRK09601 204773008132 YchF GTPase; Region: YchF; cd01900 204773008133 G1 box; other site 204773008134 GTP/Mg2+ binding site [chemical binding]; other site 204773008135 Switch I region; other site 204773008136 G2 box; other site 204773008137 Switch II region; other site 204773008138 G3 box; other site 204773008139 G4 box; other site 204773008140 G5 box; other site 204773008141 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 204773008142 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 204773008143 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 204773008144 MOSC domain; Region: MOSC; pfam03473 204773008145 Protein of unknown function, DUF484; Region: DUF484; cl17449 204773008146 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773008147 metal binding site [ion binding]; metal-binding site 204773008148 active site 204773008149 I-site; other site 204773008150 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 204773008151 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 204773008152 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 204773008153 active site 204773008154 (T/H)XGH motif; other site 204773008155 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 204773008156 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 204773008157 S-adenosylmethionine binding site [chemical binding]; other site 204773008158 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 204773008159 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 204773008160 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 204773008161 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 204773008162 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 204773008163 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 204773008164 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 204773008165 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 204773008166 P loop; other site 204773008167 GTP binding site [chemical binding]; other site 204773008168 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 204773008169 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204773008170 Walker A/P-loop; other site 204773008171 ATP binding site [chemical binding]; other site 204773008172 Q-loop/lid; other site 204773008173 ABC transporter signature motif; other site 204773008174 Walker B; other site 204773008175 D-loop; other site 204773008176 H-loop/switch region; other site 204773008177 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 204773008178 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 204773008179 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 204773008180 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 204773008181 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 204773008182 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 204773008183 DNA binding residues [nucleotide binding] 204773008184 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 204773008185 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 204773008186 Cu(I) binding site [ion binding]; other site 204773008187 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 204773008188 UbiA prenyltransferase family; Region: UbiA; pfam01040 204773008189 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 204773008190 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 204773008191 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 204773008192 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 204773008193 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 204773008194 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 204773008195 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 204773008196 Subunit III/VIIa interface [polypeptide binding]; other site 204773008197 Phospholipid binding site [chemical binding]; other site 204773008198 Subunit I/III interface [polypeptide binding]; other site 204773008199 Subunit III/VIb interface [polypeptide binding]; other site 204773008200 Subunit III/VIa interface; other site 204773008201 Subunit III/Vb interface [polypeptide binding]; other site 204773008202 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 204773008203 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 204773008204 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 204773008205 Subunit I/III interface [polypeptide binding]; other site 204773008206 D-pathway; other site 204773008207 Subunit I/VIIc interface [polypeptide binding]; other site 204773008208 Subunit I/IV interface [polypeptide binding]; other site 204773008209 Subunit I/II interface [polypeptide binding]; other site 204773008210 Low-spin heme (heme a) binding site [chemical binding]; other site 204773008211 Subunit I/VIIa interface [polypeptide binding]; other site 204773008212 Subunit I/VIa interface [polypeptide binding]; other site 204773008213 Dimer interface; other site 204773008214 Putative water exit pathway; other site 204773008215 Binuclear center (heme a3/CuB) [ion binding]; other site 204773008216 K-pathway; other site 204773008217 Subunit I/Vb interface [polypeptide binding]; other site 204773008218 Putative proton exit pathway; other site 204773008219 Subunit I/VIb interface; other site 204773008220 Subunit I/VIc interface [polypeptide binding]; other site 204773008221 Electron transfer pathway; other site 204773008222 Subunit I/VIIIb interface [polypeptide binding]; other site 204773008223 Subunit I/VIIb interface [polypeptide binding]; other site 204773008224 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 204773008225 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 204773008226 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 204773008227 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 204773008228 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 204773008229 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 204773008230 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 204773008231 S-adenosylmethionine binding site [chemical binding]; other site 204773008232 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 204773008233 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 204773008234 Protein of unknown function (DUF461); Region: DUF461; pfam04314 204773008235 Predicted metal-binding protein [General function prediction only]; Region: COG3019 204773008236 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 204773008237 dinuclear metal binding motif [ion binding]; other site 204773008238 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 204773008239 catalytic residues [active] 204773008240 dimer interface [polypeptide binding]; other site 204773008241 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 204773008242 active site 204773008243 DNA binding site [nucleotide binding] 204773008244 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 204773008245 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773008246 active site 204773008247 phosphorylation site [posttranslational modification] 204773008248 intermolecular recognition site; other site 204773008249 dimerization interface [polypeptide binding]; other site 204773008250 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 204773008251 DNA binding site [nucleotide binding] 204773008252 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 204773008253 HAMP domain; Region: HAMP; pfam00672 204773008254 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 204773008255 dimer interface [polypeptide binding]; other site 204773008256 phosphorylation site [posttranslational modification] 204773008257 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773008258 ATP binding site [chemical binding]; other site 204773008259 Mg2+ binding site [ion binding]; other site 204773008260 G-X-G motif; other site 204773008261 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 204773008262 ProQ/FINO family; Region: ProQ; smart00945 204773008263 putative RNA binding sites [nucleotide binding]; other site 204773008264 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 204773008265 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 204773008266 Major Facilitator Superfamily; Region: MFS_1; pfam07690 204773008267 putative substrate translocation pore; other site 204773008268 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 204773008269 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 204773008270 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 204773008271 Ligand Binding Site [chemical binding]; other site 204773008272 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 204773008273 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 204773008274 EF hand; Region: EF_hand_3; pfam13202 204773008275 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 204773008276 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 204773008277 putative ligand binding site [chemical binding]; other site 204773008278 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 204773008279 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 204773008280 active site 204773008281 NTP binding site [chemical binding]; other site 204773008282 metal binding triad [ion binding]; metal-binding site 204773008283 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 204773008284 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 204773008285 Zn2+ binding site [ion binding]; other site 204773008286 Mg2+ binding site [ion binding]; other site 204773008287 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 204773008288 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 204773008289 putative C-terminal domain interface [polypeptide binding]; other site 204773008290 putative GSH binding site (G-site) [chemical binding]; other site 204773008291 putative dimer interface [polypeptide binding]; other site 204773008292 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 204773008293 putative N-terminal domain interface [polypeptide binding]; other site 204773008294 putative dimer interface [polypeptide binding]; other site 204773008295 putative substrate binding pocket (H-site) [chemical binding]; other site 204773008296 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 204773008297 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 204773008298 N-acetyl-D-glucosamine binding site [chemical binding]; other site 204773008299 catalytic residue [active] 204773008300 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 204773008301 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 204773008302 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 204773008303 FAD binding site [chemical binding]; other site 204773008304 Membrane protein of unknown function; Region: DUF360; pfam04020 204773008305 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 204773008306 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 204773008307 homotetramer interface [polypeptide binding]; other site 204773008308 ligand binding site [chemical binding]; other site 204773008309 catalytic site [active] 204773008310 NAD binding site [chemical binding]; other site 204773008311 Peptidase M14-like domain of Escherichia coli Murein Peptide Amidase A and related proteins; Region: M14_MpaA_like; cd06904 204773008312 putative active site [active] 204773008313 Zn binding site [ion binding]; other site 204773008314 S-adenosylmethionine synthetase; Validated; Region: PRK05250 204773008315 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 204773008316 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 204773008317 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 204773008318 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 204773008319 putative acyl-acceptor binding pocket; other site 204773008320 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 204773008321 putative acyl-acceptor binding pocket; other site 204773008322 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 204773008323 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 204773008324 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 204773008325 Protein of unknown function, DUF484; Region: DUF484; cl17449 204773008326 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 204773008327 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 204773008328 active site 204773008329 DNA binding site [nucleotide binding] 204773008330 Int/Topo IB signature motif; other site 204773008331 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 204773008332 metal binding site 2 [ion binding]; metal-binding site 204773008333 putative DNA binding helix; other site 204773008334 metal binding site 1 [ion binding]; metal-binding site 204773008335 structural Zn2+ binding site [ion binding]; other site 204773008336 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 204773008337 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 204773008338 P-loop, Walker A motif; other site 204773008339 Base recognition motif; other site 204773008340 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 204773008341 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 204773008342 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 204773008343 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 204773008344 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 204773008345 anti sigma factor interaction site; other site 204773008346 regulatory phosphorylation site [posttranslational modification]; other site 204773008347 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 204773008348 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 204773008349 active site 204773008350 HslU subunit interaction site [polypeptide binding]; other site 204773008351 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 204773008352 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 204773008353 Walker A motif; other site 204773008354 ATP binding site [chemical binding]; other site 204773008355 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 204773008356 Walker B motif; other site 204773008357 arginine finger; other site 204773008358 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 204773008359 Cupin domain; Region: Cupin_2; cl17218 204773008360 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 204773008361 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 204773008362 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 204773008363 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 204773008364 preprotein translocase subunit SecB; Validated; Region: PRK05751 204773008365 SecA binding site; other site 204773008366 Preprotein binding site; other site 204773008367 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 204773008368 GSH binding site [chemical binding]; other site 204773008369 catalytic residues [active] 204773008370 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 204773008371 active site residue [active] 204773008372 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 204773008373 catalytic core [active] 204773008374 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 204773008375 catalytic core [active] 204773008376 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 204773008377 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 204773008378 Peptidase family M23; Region: Peptidase_M23; pfam01551 204773008379 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 204773008380 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 204773008381 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 204773008382 protein binding site [polypeptide binding]; other site 204773008383 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 204773008384 Catalytic dyad [active] 204773008385 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 204773008386 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 204773008387 ATP binding site [chemical binding]; other site 204773008388 substrate interface [chemical binding]; other site 204773008389 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 204773008390 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 204773008391 dimer interface [polypeptide binding]; other site 204773008392 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 204773008393 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773008394 active site 204773008395 phosphorylation site [posttranslational modification] 204773008396 intermolecular recognition site; other site 204773008397 dimerization interface [polypeptide binding]; other site 204773008398 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 204773008399 DNA binding site [nucleotide binding] 204773008400 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 204773008401 dimerization interface [polypeptide binding]; other site 204773008402 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 204773008403 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 204773008404 dimer interface [polypeptide binding]; other site 204773008405 phosphorylation site [posttranslational modification] 204773008406 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773008407 ATP binding site [chemical binding]; other site 204773008408 G-X-G motif; other site 204773008409 aminodeoxychorismate synthase; Provisional; Region: PRK07508 204773008410 chorismate binding enzyme; Region: Chorismate_bind; cl10555 204773008411 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 204773008412 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 204773008413 substrate-cofactor binding pocket; other site 204773008414 division inhibitor protein; Provisional; Region: slmA; PRK09480 204773008415 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 204773008416 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 204773008417 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 204773008418 motif II; other site 204773008419 TraB family; Region: TraB; pfam01963 204773008420 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773008421 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773008422 metal binding site [ion binding]; metal-binding site 204773008423 active site 204773008424 I-site; other site 204773008425 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 204773008426 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 204773008427 feedback inhibition sensing region; other site 204773008428 homohexameric interface [polypeptide binding]; other site 204773008429 nucleotide binding site [chemical binding]; other site 204773008430 N-acetyl-L-glutamate binding site [chemical binding]; other site 204773008431 Sporulation related domain; Region: SPOR; cl10051 204773008432 pantothenate kinase; Reviewed; Region: PRK13328 204773008433 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 204773008434 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 204773008435 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 204773008436 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 204773008437 Permease; Region: Permease; pfam02405 204773008438 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 204773008439 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 204773008440 Walker A/P-loop; other site 204773008441 ATP binding site [chemical binding]; other site 204773008442 Q-loop/lid; other site 204773008443 ABC transporter signature motif; other site 204773008444 Walker B; other site 204773008445 D-loop; other site 204773008446 H-loop/switch region; other site 204773008447 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 204773008448 mce related protein; Region: MCE; pfam02470 204773008449 Protein of unknown function (DUF330); Region: DUF330; cl01135 204773008450 Predicted integral membrane protein [Function unknown]; Region: COG5652 204773008451 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 204773008452 dimer interface [polypeptide binding]; other site 204773008453 [2Fe-2S] cluster binding site [ion binding]; other site 204773008454 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 204773008455 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 204773008456 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 204773008457 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 204773008458 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 204773008459 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 204773008460 homodimer interface [polypeptide binding]; other site 204773008461 substrate-cofactor binding pocket; other site 204773008462 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204773008463 catalytic residue [active] 204773008464 Protein of unknown function (DUF493); Region: DUF493; cl01102 204773008465 lipoate-protein ligase B; Provisional; Region: PRK14343 204773008466 lipoyl synthase; Provisional; Region: PRK05481 204773008467 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 204773008468 FeS/SAM binding site; other site 204773008469 metabolite-proton symporter; Region: 2A0106; TIGR00883 204773008470 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 204773008471 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 204773008472 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 204773008473 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 204773008474 Walker A/P-loop; other site 204773008475 ATP binding site [chemical binding]; other site 204773008476 Q-loop/lid; other site 204773008477 ABC transporter signature motif; other site 204773008478 Walker B; other site 204773008479 D-loop; other site 204773008480 H-loop/switch region; other site 204773008481 Predicted integral membrane protein [Function unknown]; Region: COG5615 204773008482 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 204773008483 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 204773008484 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 204773008485 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 204773008486 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 204773008487 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 204773008488 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 204773008489 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 204773008490 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 204773008491 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 204773008492 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 204773008493 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 204773008494 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 204773008495 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 204773008496 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 204773008497 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 204773008498 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 204773008499 RNA binding site [nucleotide binding]; other site 204773008500 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 204773008501 putative GSH binding site [chemical binding]; other site 204773008502 catalytic residues [active] 204773008503 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 204773008504 Flavoprotein; Region: Flavoprotein; pfam02441 204773008505 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 204773008506 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 204773008507 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 204773008508 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 204773008509 active site 204773008510 DNA binding site [nucleotide binding] 204773008511 Int/Topo IB signature motif; other site 204773008512 non-specific DNA binding site [nucleotide binding]; other site 204773008513 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 204773008514 salt bridge; other site 204773008515 sequence-specific DNA binding site [nucleotide binding]; other site 204773008516 Helix-turn-helix domain; Region: HTH_39; pfam14090 204773008517 Conserved phage C-terminus (Phg_2220_C); Region: Phg_2220_C; pfam09524 204773008518 AAA domain; Region: AAA_25; pfam13481 204773008519 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 204773008520 Walker A motif; other site 204773008521 ATP binding site [chemical binding]; other site 204773008522 Walker B motif; other site 204773008523 Staphylococcal nuclease homologues; Region: SNc; smart00318 204773008524 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 204773008525 Catalytic site; other site 204773008526 Peptidase family S64; Region: Peptidase_S64; pfam08192 204773008527 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 204773008528 stringent starvation protein A; Provisional; Region: sspA; PRK09481 204773008529 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 204773008530 C-terminal domain interface [polypeptide binding]; other site 204773008531 putative GSH binding site (G-site) [chemical binding]; other site 204773008532 dimer interface [polypeptide binding]; other site 204773008533 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 204773008534 dimer interface [polypeptide binding]; other site 204773008535 N-terminal domain interface [polypeptide binding]; other site 204773008536 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 204773008537 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 204773008538 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 204773008539 Qi binding site; other site 204773008540 intrachain domain interface; other site 204773008541 interchain domain interface [polypeptide binding]; other site 204773008542 heme bH binding site [chemical binding]; other site 204773008543 heme bL binding site [chemical binding]; other site 204773008544 Qo binding site; other site 204773008545 interchain domain interface [polypeptide binding]; other site 204773008546 intrachain domain interface; other site 204773008547 Qi binding site; other site 204773008548 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 204773008549 Qo binding site; other site 204773008550 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 204773008551 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 204773008552 [2Fe-2S] cluster binding site [ion binding]; other site 204773008553 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 204773008554 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 204773008555 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 204773008556 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773008557 active site 204773008558 phosphorylation site [posttranslational modification] 204773008559 intermolecular recognition site; other site 204773008560 dimerization interface [polypeptide binding]; other site 204773008561 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 204773008562 DNA binding residues [nucleotide binding] 204773008563 dimerization interface [polypeptide binding]; other site 204773008564 Uncharacterized conserved protein [Function unknown]; Region: COG0327 204773008565 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 204773008566 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 204773008567 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 204773008568 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 204773008569 protein binding site [polypeptide binding]; other site 204773008570 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 204773008571 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 204773008572 sec-independent translocase; Provisional; Region: tatB; PRK01919 204773008573 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 204773008574 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 204773008575 nucleotide binding site/active site [active] 204773008576 HIT family signature motif; other site 204773008577 catalytic residue [active] 204773008578 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 204773008579 metal binding site [ion binding]; metal-binding site 204773008580 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 204773008581 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 204773008582 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 204773008583 substrate binding site [chemical binding]; other site 204773008584 glutamase interaction surface [polypeptide binding]; other site 204773008585 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 204773008586 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 204773008587 catalytic residues [active] 204773008588 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 204773008589 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 204773008590 putative active site [active] 204773008591 oxyanion strand; other site 204773008592 catalytic triad [active] 204773008593 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 204773008594 putative active site pocket [active] 204773008595 4-fold oligomerization interface [polypeptide binding]; other site 204773008596 metal binding residues [ion binding]; metal-binding site 204773008597 3-fold/trimer interface [polypeptide binding]; other site 204773008598 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 204773008599 DNA methylase; Region: N6_N4_Mtase; pfam01555 204773008600 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 204773008601 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 204773008602 NAD binding site [chemical binding]; other site 204773008603 dimerization interface [polypeptide binding]; other site 204773008604 product binding site; other site 204773008605 substrate binding site [chemical binding]; other site 204773008606 zinc binding site [ion binding]; other site 204773008607 catalytic residues [active] 204773008608 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 204773008609 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 204773008610 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 204773008611 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 204773008612 hinge; other site 204773008613 active site 204773008614 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 204773008615 ABC-2 type transporter; Region: ABC2_membrane; cl17235 204773008616 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 204773008617 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 204773008618 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 204773008619 Walker A/P-loop; other site 204773008620 ATP binding site [chemical binding]; other site 204773008621 Q-loop/lid; other site 204773008622 ABC transporter signature motif; other site 204773008623 Walker B; other site 204773008624 D-loop; other site 204773008625 H-loop/switch region; other site 204773008626 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 204773008627 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 204773008628 VacJ like lipoprotein; Region: VacJ; cl01073 204773008629 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 204773008630 mce related protein; Region: MCE; pfam02470 204773008631 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 204773008632 Permease; Region: Permease; pfam02405 204773008633 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 204773008634 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 204773008635 Walker A/P-loop; other site 204773008636 ATP binding site [chemical binding]; other site 204773008637 Q-loop/lid; other site 204773008638 ABC transporter signature motif; other site 204773008639 Walker B; other site 204773008640 D-loop; other site 204773008641 H-loop/switch region; other site 204773008642 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 204773008643 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 204773008644 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 204773008645 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 204773008646 active site 204773008647 dimer interface [polypeptide binding]; other site 204773008648 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 204773008649 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 204773008650 active site 204773008651 FMN binding site [chemical binding]; other site 204773008652 substrate binding site [chemical binding]; other site 204773008653 3Fe-4S cluster binding site [ion binding]; other site 204773008654 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 204773008655 domain interface; other site 204773008656 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 204773008657 HDOD domain; Region: HDOD; pfam08668 204773008658 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 204773008659 PAS domain; Region: PAS_9; pfam13426 204773008660 putative active site [active] 204773008661 heme pocket [chemical binding]; other site 204773008662 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773008663 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773008664 metal binding site [ion binding]; metal-binding site 204773008665 active site 204773008666 I-site; other site 204773008667 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 204773008668 MltA-interacting protein MipA; Region: MipA; cl01504 204773008669 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 204773008670 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 204773008671 dimerization interface [polypeptide binding]; other site 204773008672 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 204773008673 dimer interface [polypeptide binding]; other site 204773008674 putative CheW interface [polypeptide binding]; other site 204773008675 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 204773008676 putative CheA interaction surface; other site 204773008677 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 204773008678 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 204773008679 trimer interface [polypeptide binding]; other site 204773008680 eyelet of channel; other site 204773008681 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 204773008682 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 204773008683 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 204773008684 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 204773008685 XapX domain; Region: XapX; TIGR03510 204773008686 XapX domain; Region: XapX; TIGR03510 204773008687 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 204773008688 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 204773008689 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 204773008690 dimer interface [polypeptide binding]; other site 204773008691 ssDNA binding site [nucleotide binding]; other site 204773008692 tetramer (dimer of dimers) interface [polypeptide binding]; other site 204773008693 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 204773008694 Major Facilitator Superfamily; Region: MFS_1; pfam07690 204773008695 putative substrate translocation pore; other site 204773008696 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 204773008697 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 204773008698 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 204773008699 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 204773008700 Predicted permeases [General function prediction only]; Region: COG0679 204773008701 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 204773008702 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 204773008703 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 204773008704 hypothetical protein; Validated; Region: PRK08238 204773008705 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 204773008706 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 204773008707 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 204773008708 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 204773008709 TrkA-N domain; Region: TrkA_N; pfam02254 204773008710 TrkA-C domain; Region: TrkA_C; pfam02080 204773008711 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 204773008712 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 204773008713 putative active site [active] 204773008714 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 204773008715 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 204773008716 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 204773008717 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 204773008718 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 204773008719 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 204773008720 OstA-like protein; Region: OstA; pfam03968 204773008721 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 204773008722 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 204773008723 Walker A/P-loop; other site 204773008724 ATP binding site [chemical binding]; other site 204773008725 Q-loop/lid; other site 204773008726 ABC transporter signature motif; other site 204773008727 Walker B; other site 204773008728 D-loop; other site 204773008729 H-loop/switch region; other site 204773008730 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 204773008731 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 204773008732 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 204773008733 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 204773008734 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 204773008735 30S subunit binding site; other site 204773008736 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 204773008737 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 204773008738 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 204773008739 Type II transport protein GspH; Region: GspH; pfam12019 204773008740 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 204773008741 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 204773008742 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 204773008743 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 204773008744 substrate binding site [chemical binding]; other site 204773008745 oxyanion hole (OAH) forming residues; other site 204773008746 trimer interface [polypeptide binding]; other site 204773008747 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 204773008748 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 204773008749 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 204773008750 Zn2+ binding site [ion binding]; other site 204773008751 Mg2+ binding site [ion binding]; other site 204773008752 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 204773008753 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 204773008754 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional; Region: PRK14021 204773008755 ADP binding site [chemical binding]; other site 204773008756 magnesium binding site [ion binding]; other site 204773008757 putative shikimate binding site; other site 204773008758 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 204773008759 active site 204773008760 dimer interface [polypeptide binding]; other site 204773008761 metal binding site [ion binding]; metal-binding site 204773008762 AMIN domain; Region: AMIN; pfam11741 204773008763 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 204773008764 Secretin and TonB N terminus short domain; Region: STN; smart00965 204773008765 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 204773008766 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 204773008767 Pilus assembly protein, PilP; Region: PilP; pfam04351 204773008768 Pilus assembly protein, PilO; Region: PilO; pfam04350 204773008769 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 204773008770 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 204773008771 Cell division protein FtsA; Region: FtsA; cl17206 204773008772 Competence protein A; Region: Competence_A; pfam11104 204773008773 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 204773008774 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 204773008775 Transglycosylase; Region: Transgly; pfam00912 204773008776 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 204773008777 frataxin-like protein; Provisional; Region: cyaY; PRK00446 204773008778 putative iron binding site [ion binding]; other site 204773008779 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 204773008780 diaminopimelate decarboxylase; Region: lysA; TIGR01048 204773008781 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 204773008782 active site 204773008783 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 204773008784 substrate binding site [chemical binding]; other site 204773008785 catalytic residues [active] 204773008786 dimer interface [polypeptide binding]; other site 204773008787 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 204773008788 TMAO/DMSO reductase; Reviewed; Region: PRK05363 204773008789 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 204773008790 Moco binding site; other site 204773008791 metal coordination site [ion binding]; other site 204773008792 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 204773008793 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 204773008794 ResB-like family; Region: ResB; pfam05140 204773008795 ResB-like family; Region: ResB; pfam05140 204773008796 Cytochrome c553 [Energy production and conversion]; Region: COG2863 204773008797 Cytochrome c; Region: Cytochrom_C; cl11414 204773008798 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 204773008799 G1 box; other site 204773008800 GTP/Mg2+ binding site [chemical binding]; other site 204773008801 Switch I region; other site 204773008802 G2 box; other site 204773008803 G3 box; other site 204773008804 Switch II region; other site 204773008805 G4 box; other site 204773008806 G5 box; other site 204773008807 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_aspartate_rich; cd04823 204773008808 dimer interface [polypeptide binding]; other site 204773008809 allosteric magnesium binding site [ion binding]; other site 204773008810 active site 204773008811 aspartate-rich active site metal binding site; other site 204773008812 Schiff base residues; other site 204773008813 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 204773008814 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 204773008815 dimer interface [polypeptide binding]; other site 204773008816 decamer (pentamer of dimers) interface [polypeptide binding]; other site 204773008817 catalytic triad [active] 204773008818 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 204773008819 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 204773008820 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 204773008821 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 204773008822 DsbD alpha interface [polypeptide binding]; other site 204773008823 catalytic residues [active] 204773008824 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 204773008825 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 204773008826 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 204773008827 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 204773008828 alphaNTD homodimer interface [polypeptide binding]; other site 204773008829 alphaNTD - beta interaction site [polypeptide binding]; other site 204773008830 alphaNTD - beta' interaction site [polypeptide binding]; other site 204773008831 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 204773008832 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 204773008833 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 204773008834 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 204773008835 RNA binding surface [nucleotide binding]; other site 204773008836 30S ribosomal protein S11; Validated; Region: PRK05309 204773008837 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 204773008838 30S ribosomal protein S13; Region: bact_S13; TIGR03631 204773008839 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 204773008840 rRNA binding site [nucleotide binding]; other site 204773008841 predicted 30S ribosome binding site; other site 204773008842 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 204773008843 SecY translocase; Region: SecY; pfam00344 204773008844 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 204773008845 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 204773008846 23S rRNA binding site [nucleotide binding]; other site 204773008847 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 204773008848 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 204773008849 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 204773008850 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 204773008851 5S rRNA interface [nucleotide binding]; other site 204773008852 L5 interface [polypeptide binding]; other site 204773008853 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 204773008854 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 204773008855 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 204773008856 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 204773008857 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 204773008858 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 204773008859 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 204773008860 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 204773008861 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 204773008862 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 204773008863 RNA binding site [nucleotide binding]; other site 204773008864 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 204773008865 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 204773008866 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 204773008867 23S rRNA interface [nucleotide binding]; other site 204773008868 putative translocon interaction site; other site 204773008869 signal recognition particle (SRP54) interaction site; other site 204773008870 L23 interface [polypeptide binding]; other site 204773008871 trigger factor interaction site; other site 204773008872 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 204773008873 23S rRNA interface [nucleotide binding]; other site 204773008874 5S rRNA interface [nucleotide binding]; other site 204773008875 putative antibiotic binding site [chemical binding]; other site 204773008876 L25 interface [polypeptide binding]; other site 204773008877 L27 interface [polypeptide binding]; other site 204773008878 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 204773008879 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 204773008880 G-X-X-G motif; other site 204773008881 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 204773008882 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 204773008883 putative translocon binding site; other site 204773008884 protein-rRNA interface [nucleotide binding]; other site 204773008885 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 204773008886 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 204773008887 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 204773008888 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 204773008889 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 204773008890 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 204773008891 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 204773008892 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 204773008893 elongation factor Tu; Reviewed; Region: PRK00049 204773008894 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 204773008895 G1 box; other site 204773008896 GEF interaction site [polypeptide binding]; other site 204773008897 GTP/Mg2+ binding site [chemical binding]; other site 204773008898 Switch I region; other site 204773008899 G2 box; other site 204773008900 G3 box; other site 204773008901 Switch II region; other site 204773008902 G4 box; other site 204773008903 G5 box; other site 204773008904 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 204773008905 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 204773008906 Antibiotic Binding Site [chemical binding]; other site 204773008907 elongation factor G; Reviewed; Region: PRK00007 204773008908 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 204773008909 G1 box; other site 204773008910 putative GEF interaction site [polypeptide binding]; other site 204773008911 GTP/Mg2+ binding site [chemical binding]; other site 204773008912 Switch I region; other site 204773008913 G2 box; other site 204773008914 G3 box; other site 204773008915 Switch II region; other site 204773008916 G4 box; other site 204773008917 G5 box; other site 204773008918 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 204773008919 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 204773008920 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 204773008921 30S ribosomal protein S7; Validated; Region: PRK05302 204773008922 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 204773008923 S17 interaction site [polypeptide binding]; other site 204773008924 S8 interaction site; other site 204773008925 16S rRNA interaction site [nucleotide binding]; other site 204773008926 streptomycin interaction site [chemical binding]; other site 204773008927 23S rRNA interaction site [nucleotide binding]; other site 204773008928 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 204773008929 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 204773008930 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 204773008931 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 204773008932 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 204773008933 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 204773008934 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 204773008935 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 204773008936 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 204773008937 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 204773008938 DNA binding site [nucleotide binding] 204773008939 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 204773008940 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 204773008941 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 204773008942 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 204773008943 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 204773008944 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 204773008945 RPB3 interaction site [polypeptide binding]; other site 204773008946 RPB1 interaction site [polypeptide binding]; other site 204773008947 RPB11 interaction site [polypeptide binding]; other site 204773008948 RPB10 interaction site [polypeptide binding]; other site 204773008949 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 204773008950 core dimer interface [polypeptide binding]; other site 204773008951 peripheral dimer interface [polypeptide binding]; other site 204773008952 L10 interface [polypeptide binding]; other site 204773008953 L11 interface [polypeptide binding]; other site 204773008954 putative EF-Tu interaction site [polypeptide binding]; other site 204773008955 putative EF-G interaction site [polypeptide binding]; other site 204773008956 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 204773008957 23S rRNA interface [nucleotide binding]; other site 204773008958 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 204773008959 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 204773008960 mRNA/rRNA interface [nucleotide binding]; other site 204773008961 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 204773008962 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 204773008963 23S rRNA interface [nucleotide binding]; other site 204773008964 L7/L12 interface [polypeptide binding]; other site 204773008965 putative thiostrepton binding site; other site 204773008966 L25 interface [polypeptide binding]; other site 204773008967 transcription termination/antitermination factor NusG; Region: nusG; TIGR00922 204773008968 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 204773008969 putative homodimer interface [polypeptide binding]; other site 204773008970 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 204773008971 heterodimer interface [polypeptide binding]; other site 204773008972 homodimer interface [polypeptide binding]; other site 204773008973 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 204773008974 elongation factor Tu; Reviewed; Region: PRK00049 204773008975 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 204773008976 G1 box; other site 204773008977 GEF interaction site [polypeptide binding]; other site 204773008978 GTP/Mg2+ binding site [chemical binding]; other site 204773008979 Switch I region; other site 204773008980 G2 box; other site 204773008981 G3 box; other site 204773008982 Switch II region; other site 204773008983 G4 box; other site 204773008984 G5 box; other site 204773008985 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 204773008986 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 204773008987 Antibiotic Binding Site [chemical binding]; other site 204773008988 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 204773008989 Peptidase C26; Region: Peptidase_C26; pfam07722 204773008990 catalytic triad [active] 204773008991 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 204773008992 ArsC family; Region: ArsC; pfam03960 204773008993 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 204773008994 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773008995 active site 204773008996 phosphorylation site [posttranslational modification] 204773008997 intermolecular recognition site; other site 204773008998 dimerization interface [polypeptide binding]; other site 204773008999 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 204773009000 binding surface 204773009001 TPR motif; other site 204773009002 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773009003 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773009004 metal binding site [ion binding]; metal-binding site 204773009005 active site 204773009006 I-site; other site 204773009007 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 204773009008 putative substrate translocation pore; other site 204773009009 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 204773009010 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 204773009011 Domain of unknown function DUF21; Region: DUF21; pfam01595 204773009012 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 204773009013 Transporter associated domain; Region: CorC_HlyC; smart01091 204773009014 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 204773009015 Uncharacterized conserved protein [Function unknown]; Region: COG1565 204773009016 short chain dehydrogenase; Provisional; Region: PRK09134 204773009017 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 204773009018 NAD(P) binding site [chemical binding]; other site 204773009019 active site 204773009020 Dihydroneopterin aldolase; Region: FolB; smart00905 204773009021 active site 204773009022 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 204773009023 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 204773009024 Ligand Binding Site [chemical binding]; other site 204773009025 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 204773009026 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 204773009027 dimer interface [polypeptide binding]; other site 204773009028 putative CheW interface [polypeptide binding]; other site 204773009029 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 204773009030 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 204773009031 Substrate binding site; other site 204773009032 Mg++ binding site; other site 204773009033 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 204773009034 active site 204773009035 substrate binding site [chemical binding]; other site 204773009036 CoA binding site [chemical binding]; other site 204773009037 Pathogenicity locus; Region: Cdd1; pfam11731 204773009038 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 204773009039 putative DNA binding site [nucleotide binding]; other site 204773009040 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 204773009041 putative Zn2+ binding site [ion binding]; other site 204773009042 AsnC family; Region: AsnC_trans_reg; pfam01037 204773009043 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 204773009044 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 204773009045 glutaminase active site [active] 204773009046 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 204773009047 dimer interface [polypeptide binding]; other site 204773009048 active site 204773009049 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 204773009050 dimer interface [polypeptide binding]; other site 204773009051 active site 204773009052 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 204773009053 ComEC family competence protein; Provisional; Region: PRK11539 204773009054 Prokaryotic E2 family A; Region: Prok-E2_A; pfam14457 204773009055 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 204773009056 ATP binding site [chemical binding]; other site 204773009057 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 204773009058 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 204773009059 non-specific DNA binding site [nucleotide binding]; other site 204773009060 salt bridge; other site 204773009061 sequence-specific DNA binding site [nucleotide binding]; other site 204773009062 Protein of unknown function DUF262; Region: DUF262; pfam03235 204773009063 Uncharacterized conserved protein [Function unknown]; Region: COG1479 204773009064 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 204773009065 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 204773009066 putative DNA binding site [nucleotide binding]; other site 204773009067 putative Zn2+ binding site [ion binding]; other site 204773009068 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 204773009069 Low molecular weight phosphatase family; Region: LMWPc; cd00115 204773009070 active site 204773009071 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 204773009072 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 204773009073 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 204773009074 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 204773009075 Sulfate transporter family; Region: Sulfate_transp; pfam00916 204773009076 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 204773009077 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 204773009078 Helix-turn-helix domain; Region: HTH_38; pfam13936 204773009079 Homeodomain-like domain; Region: HTH_32; pfam13565 204773009080 Integrase core domain; Region: rve; pfam00665 204773009081 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 204773009082 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 204773009083 Walker A/P-loop; other site 204773009084 ATP binding site [chemical binding]; other site 204773009085 Q-loop/lid; other site 204773009086 ABC transporter signature motif; other site 204773009087 Walker B; other site 204773009088 D-loop; other site 204773009089 H-loop/switch region; other site 204773009090 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 204773009091 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 204773009092 substrate binding pocket [chemical binding]; other site 204773009093 membrane-bound complex binding site; other site 204773009094 hinge residues; other site 204773009095 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 204773009096 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 204773009097 dimer interface [polypeptide binding]; other site 204773009098 conserved gate region; other site 204773009099 putative PBP binding loops; other site 204773009100 ABC-ATPase subunit interface; other site 204773009101 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 204773009102 Thermostable Phosphite Dehydrogenase; Region: PTDH; cd12157 204773009103 homodimer interface [polypeptide binding]; other site 204773009104 ligand binding site [chemical binding]; other site 204773009105 NAD binding site [chemical binding]; other site 204773009106 catalytic site [active] 204773009107 Transcriptional regulator [Transcription]; Region: LysR; COG0583 204773009108 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204773009109 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 204773009110 dimerization interface [polypeptide binding]; other site 204773009111 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 204773009112 Helix-turn-helix domain; Region: HTH_38; pfam13936 204773009113 Homeodomain-like domain; Region: HTH_32; pfam13565 204773009114 Integrase core domain; Region: rve; pfam00665 204773009115 Uncharacterized conserved protein [Function unknown]; Region: COG4748 204773009116 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 204773009117 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 204773009118 TniQ; Region: TniQ; pfam06527 204773009119 AAA domain; Region: AAA_22; pfam13401 204773009120 Integrase core domain; Region: rve; pfam00665 204773009121 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 204773009122 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 204773009123 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 204773009124 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 204773009125 tartrate dehydrogenase; Region: TTC; TIGR02089 204773009126 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 204773009127 Cupin domain; Region: Cupin_2; cl17218 204773009128 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 204773009129 Helix-turn-helix domain; Region: HTH_18; pfam12833 204773009130 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 204773009131 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 204773009132 putative substrate translocation pore; other site 204773009133 Major Facilitator Superfamily; Region: MFS_1; pfam07690 204773009134 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 204773009135 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 204773009136 DEAD-like helicases superfamily; Region: DEXDc; smart00487 204773009137 ATP binding site [chemical binding]; other site 204773009138 Mg++ binding site [ion binding]; other site 204773009139 motif III; other site 204773009140 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 204773009141 nucleotide binding region [chemical binding]; other site 204773009142 ATP-binding site [chemical binding]; other site 204773009143 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 204773009144 putative RNA binding site [nucleotide binding]; other site 204773009145 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 204773009146 putative RNA binding site [nucleotide binding]; other site 204773009147 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 204773009148 active site 1 [active] 204773009149 dimer interface [polypeptide binding]; other site 204773009150 hexamer interface [polypeptide binding]; other site 204773009151 active site 2 [active] 204773009152 Major Facilitator Superfamily; Region: MFS_1; pfam07690 204773009153 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 204773009154 putative substrate translocation pore; other site 204773009155 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 204773009156 HlyD family secretion protein; Region: HlyD_2; pfam12700 204773009157 HlyD family secretion protein; Region: HlyD_3; pfam13437 204773009158 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 204773009159 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 204773009160 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 204773009161 Cytochrome c; Region: Cytochrom_C; pfam00034 204773009162 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 204773009163 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 204773009164 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 204773009165 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 204773009166 putative substrate translocation pore; other site 204773009167 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 204773009168 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 204773009169 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 204773009170 non-specific DNA binding site [nucleotide binding]; other site 204773009171 salt bridge; other site 204773009172 sequence-specific DNA binding site [nucleotide binding]; other site 204773009173 Cupin domain; Region: Cupin_2; pfam07883 204773009174 allantoate amidohydrolase; Reviewed; Region: PRK09290 204773009175 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 204773009176 active site 204773009177 metal binding site [ion binding]; metal-binding site 204773009178 dimer interface [polypeptide binding]; other site 204773009179 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 204773009180 Amidase; Region: Amidase; cl11426 204773009181 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 204773009182 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 204773009183 Walker A/P-loop; other site 204773009184 ATP binding site [chemical binding]; other site 204773009185 Q-loop/lid; other site 204773009186 ABC transporter signature motif; other site 204773009187 Walker B; other site 204773009188 D-loop; other site 204773009189 H-loop/switch region; other site 204773009190 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 204773009191 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 204773009192 Walker A/P-loop; other site 204773009193 ATP binding site [chemical binding]; other site 204773009194 Q-loop/lid; other site 204773009195 ABC transporter signature motif; other site 204773009196 Walker B; other site 204773009197 D-loop; other site 204773009198 H-loop/switch region; other site 204773009199 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 204773009200 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 204773009201 TM-ABC transporter signature motif; other site 204773009202 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 204773009203 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 204773009204 TM-ABC transporter signature motif; other site 204773009205 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 204773009206 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 204773009207 dimerization interface [polypeptide binding]; other site 204773009208 ligand binding site [chemical binding]; other site 204773009209 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 204773009210 Uncharacterized conserved protein [Function unknown]; Region: COG3791 204773009211 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 204773009212 catalytic core [active] 204773009213 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 204773009214 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 204773009215 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 204773009216 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 204773009217 dimer interface [polypeptide binding]; other site 204773009218 putative CheW interface [polypeptide binding]; other site 204773009219 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 204773009220 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 204773009221 propionate catabolism operon regulatory protein PrpR; Provisional; Region: PRK15424 204773009222 Propionate catabolism activator; Region: PrpR_N; pfam06506 204773009223 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 204773009224 Walker A motif; other site 204773009225 ATP binding site [chemical binding]; other site 204773009226 Walker B motif; other site 204773009227 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 204773009228 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 204773009229 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 204773009230 tetramer interface [polypeptide binding]; other site 204773009231 active site 204773009232 Mg2+/Mn2+ binding site [ion binding]; other site 204773009233 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 204773009234 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 204773009235 dimer interface [polypeptide binding]; other site 204773009236 active site 204773009237 citrylCoA binding site [chemical binding]; other site 204773009238 oxalacetate/citrate binding site [chemical binding]; other site 204773009239 coenzyme A binding site [chemical binding]; other site 204773009240 catalytic triad [active] 204773009241 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 204773009242 2-methylcitrate dehydratase; Region: prpD; TIGR02330 204773009243 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 204773009244 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 204773009245 acyl-activating enzyme (AAE) consensus motif; other site 204773009246 AMP binding site [chemical binding]; other site 204773009247 active site 204773009248 CoA binding site [chemical binding]; other site 204773009249 isocitrate dehydrogenase; Validated; Region: PRK06451 204773009250 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 204773009251 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 204773009252 Pirin-related protein [General function prediction only]; Region: COG1741 204773009253 Pirin; Region: Pirin; pfam02678 204773009254 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 204773009255 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 204773009256 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773009257 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773009258 metal binding site [ion binding]; metal-binding site 204773009259 active site 204773009260 I-site; other site 204773009261 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 204773009262 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 204773009263 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 204773009264 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 204773009265 DNA binding residues [nucleotide binding] 204773009266 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 204773009267 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 204773009268 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 204773009269 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 204773009270 putative substrate translocation pore; other site 204773009271 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 204773009272 Domain of unknown function DUF20; Region: UPF0118; pfam01594 204773009273 Hemerythrin-like domain; Region: Hr-like; cd12108 204773009274 rhodanese superfamily protein; Provisional; Region: PRK05320 204773009275 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 204773009276 active site residue [active] 204773009277 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 204773009278 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 204773009279 probable active site [active] 204773009280 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 204773009281 Ligand binding site; other site 204773009282 DXD motif; other site 204773009283 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 204773009284 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 204773009285 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 204773009286 Predicted membrane protein [Function unknown]; Region: COG2311 204773009287 Protein of unknown function (DUF418); Region: DUF418; pfam04235 204773009288 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 204773009289 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 204773009290 Walker A/P-loop; other site 204773009291 ATP binding site [chemical binding]; other site 204773009292 Q-loop/lid; other site 204773009293 ABC transporter signature motif; other site 204773009294 Walker B; other site 204773009295 D-loop; other site 204773009296 H-loop/switch region; other site 204773009297 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 204773009298 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 204773009299 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 204773009300 Walker A/P-loop; other site 204773009301 ATP binding site [chemical binding]; other site 204773009302 Q-loop/lid; other site 204773009303 ABC transporter signature motif; other site 204773009304 Walker B; other site 204773009305 D-loop; other site 204773009306 H-loop/switch region; other site 204773009307 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 204773009308 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 204773009309 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 204773009310 dimer interface [polypeptide binding]; other site 204773009311 conserved gate region; other site 204773009312 putative PBP binding loops; other site 204773009313 ABC-ATPase subunit interface; other site 204773009314 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 204773009315 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 204773009316 dimer interface [polypeptide binding]; other site 204773009317 conserved gate region; other site 204773009318 putative PBP binding loops; other site 204773009319 ABC-ATPase subunit interface; other site 204773009320 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 204773009321 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_2; cd08498 204773009322 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 204773009323 metal-binding site [ion binding] 204773009324 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 204773009325 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 204773009326 metal-binding site [ion binding] 204773009327 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 204773009328 Soluble P-type ATPase [General function prediction only]; Region: COG4087 204773009329 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 204773009330 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 204773009331 DNA binding residues [nucleotide binding] 204773009332 dimer interface [polypeptide binding]; other site 204773009333 copper binding site [ion binding]; other site 204773009334 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 204773009335 metal-binding site [ion binding] 204773009336 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 204773009337 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 204773009338 arsenical pump membrane protein; Provisional; Region: PRK15445 204773009339 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 204773009340 transmembrane helices; other site 204773009341 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 204773009342 Low molecular weight phosphatase family; Region: LMWPc; cd00115 204773009343 active site 204773009344 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 204773009345 dimerization interface [polypeptide binding]; other site 204773009346 putative DNA binding site [nucleotide binding]; other site 204773009347 putative Zn2+ binding site [ion binding]; other site 204773009348 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773009349 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773009350 metal binding site [ion binding]; metal-binding site 204773009351 active site 204773009352 I-site; other site 204773009353 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 204773009354 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 204773009355 N-terminal plug; other site 204773009356 ligand-binding site [chemical binding]; other site 204773009357 EamA-like transporter family; Region: EamA; cl17759 204773009358 Predicted permeases [General function prediction only]; Region: RarD; COG2962 204773009359 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 204773009360 potassium uptake protein; Region: kup; TIGR00794 204773009361 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 204773009362 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 204773009363 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 204773009364 ABC transporter; Region: ABC_tran_2; pfam12848 204773009365 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 204773009366 Cupin domain; Region: Cupin_2; pfam07883 204773009367 Uncharacterized conserved protein [Function unknown]; Region: COG1739 204773009368 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 204773009369 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 204773009370 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 204773009371 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 204773009372 active site 204773009373 catalytic tetrad [active] 204773009374 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 204773009375 catalytic residues [active] 204773009376 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 204773009377 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 204773009378 metal binding site [ion binding]; metal-binding site 204773009379 active site 204773009380 I-site; other site 204773009381 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 204773009382 Predicted membrane protein [Function unknown]; Region: COG2119 204773009383 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 204773009384 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 204773009385 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 204773009386 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 204773009387 FMN binding site [chemical binding]; other site 204773009388 substrate binding site [chemical binding]; other site 204773009389 putative catalytic residue [active] 204773009390 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 204773009391 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 204773009392 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 204773009393 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 204773009394 Walker A/P-loop; other site 204773009395 ATP binding site [chemical binding]; other site 204773009396 Q-loop/lid; other site 204773009397 ABC transporter signature motif; other site 204773009398 Walker B; other site 204773009399 D-loop; other site 204773009400 H-loop/switch region; other site 204773009401 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 204773009402 cyanophycin synthetase; Provisional; Region: PRK14016 204773009403 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 204773009404 cyanophycin synthetase; Provisional; Region: PRK14016 204773009405 ATP-grasp domain; Region: ATP-grasp_4; cl17255 204773009406 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 204773009407 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 204773009408 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 204773009409 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204773009410 DNA-binding site [nucleotide binding]; DNA binding site 204773009411 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 204773009412 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 204773009413 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 204773009414 NMT1-like family; Region: NMT1_2; pfam13379 204773009415 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 204773009416 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 204773009417 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 204773009418 Iron-sulfur protein interface; other site 204773009419 proximal heme binding site [chemical binding]; other site 204773009420 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 204773009421 Tartrate dehydratase beta subunit/Fumarate hydratase class I, C-terminal domain [Energy production and conversion]; Region: FumA; COG1838 204773009422 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK06263 204773009423 L-aspartate oxidase; Provisional; Region: PRK06175 204773009424 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 204773009425 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 204773009426 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 204773009427 DNA-binding site [nucleotide binding]; DNA binding site 204773009428 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 204773009429 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 204773009430 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 204773009431 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 204773009432 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 204773009433 Walker A/P-loop; other site 204773009434 ATP binding site [chemical binding]; other site 204773009435 Q-loop/lid; other site 204773009436 ABC transporter signature motif; other site 204773009437 Walker B; other site 204773009438 D-loop; other site 204773009439 H-loop/switch region; other site 204773009440 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 204773009441 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 204773009442 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 204773009443 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 204773009444 ligand binding site [chemical binding]; other site 204773009445 NAD binding site [chemical binding]; other site 204773009446 dimerization interface [polypeptide binding]; other site 204773009447 catalytic site [active] 204773009448 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 204773009449 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 204773009450 anaerobic dimethyl sulfoxide reductase subunit A; Provisional; Region: PRK14990 204773009451 molybdopterin cofactor binding site; other site 204773009452 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 204773009453 The MopB_CT_2 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is...; Region: MopB_CT_2; cd02783 204773009454 putative molybdopterin cofactor binding site; other site 204773009455 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 204773009456 4Fe-4S binding domain; Region: Fer4; pfam00037 204773009457 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 204773009458 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 204773009459 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 204773009460 Sulfate transporter family; Region: Sulfate_transp; pfam00916 204773009461 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 204773009462 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 204773009463 Ligand Binding Site [chemical binding]; other site 204773009464 Cytochrome c; Region: Cytochrom_C; cl11414 204773009465 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 204773009466 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 204773009467 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 204773009468 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 204773009469 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 204773009470 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 204773009471 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 204773009472 Uncharacterized conserved protein [Function unknown]; Region: COG1434 204773009473 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 204773009474 putative active site [active] 204773009475 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 204773009476 TAP-like protein; Region: Abhydrolase_4; pfam08386 204773009477 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 204773009478 Mechanosensitive ion channel; Region: MS_channel; pfam00924 204773009479 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 204773009480 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 204773009481 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 204773009482 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 204773009483 active site 204773009484 DNA binding site [nucleotide binding] 204773009485 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 204773009486 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 204773009487 SlyX; Region: SlyX; pfam04102 204773009488 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 204773009489 Part of AAA domain; Region: AAA_19; pfam13245 204773009490 Family description; Region: UvrD_C_2; pfam13538 204773009491 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 204773009492 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 204773009493 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 204773009494 TrkA-N domain; Region: TrkA_N; pfam02254 204773009495 TrkA-C domain; Region: TrkA_C; pfam02080 204773009496 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 204773009497 putative hydrophobic ligand binding site [chemical binding]; other site 204773009498 BON domain; Region: BON; pfam04972 204773009499 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 204773009500 L-ectoine synthase; Reviewed; Region: ectC; PRK13290 204773009501 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 204773009502 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 204773009503 inhibitor-cofactor binding pocket; inhibition site 204773009504 pyridoxal 5'-phosphate binding site [chemical binding]; other site 204773009505 catalytic residue [active] 204773009506 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 204773009507 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 204773009508 Coenzyme A binding pocket [chemical binding]; other site 204773009509 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 204773009510 MarR family; Region: MarR; pfam01047 204773009511 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 204773009512 Coenzyme A binding pocket [chemical binding]; other site 204773009513 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 204773009514 primosome assembly protein PriA; Validated; Region: PRK05580 204773009515 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 204773009516 ATP binding site [chemical binding]; other site 204773009517 putative Mg++ binding site [ion binding]; other site 204773009518 helicase superfamily c-terminal domain; Region: HELICc; smart00490 204773009519 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 204773009520 substrate binding site [chemical binding]; other site 204773009521 active site 204773009522 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 204773009523 Flagellar protein YcgR; Region: YcgR_2; pfam12945 204773009524 PilZ domain; Region: PilZ; pfam07238 204773009525 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2; cl00208 204773009526 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 204773009527 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 204773009528 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 204773009529 putative dimer interface [polypeptide binding]; other site 204773009530 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 204773009531 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 204773009532 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 204773009533 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 204773009534 Transthyretin-like family; Region: DUF290; pfam01060 204773009535 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 204773009536 ApbE family; Region: ApbE; pfam02424 204773009537 Flavodoxin; Region: Flavodoxin_1; pfam00258 204773009538 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 204773009539 FAD binding pocket [chemical binding]; other site 204773009540 FAD binding motif [chemical binding]; other site 204773009541 catalytic residues [active] 204773009542 NAD binding pocket [chemical binding]; other site 204773009543 phosphate binding motif [ion binding]; other site 204773009544 beta-alpha-beta structure motif; other site 204773009545 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 204773009546 catecholate siderophore receptor Fiu; Provisional; Region: PRK09840 204773009547 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 204773009548 N-terminal plug; other site 204773009549 ligand-binding site [chemical binding]; other site 204773009550 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 204773009551 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 204773009552 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 204773009553 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 204773009554 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 204773009555 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 204773009556 gamma subunit interface [polypeptide binding]; other site 204773009557 epsilon subunit interface [polypeptide binding]; other site 204773009558 LBP interface [polypeptide binding]; other site 204773009559 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 204773009560 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 204773009561 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 204773009562 alpha subunit interaction interface [polypeptide binding]; other site 204773009563 Walker A motif; other site 204773009564 ATP binding site [chemical binding]; other site 204773009565 Walker B motif; other site 204773009566 inhibitor binding site; inhibition site 204773009567 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 204773009568 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 204773009569 core domain interface [polypeptide binding]; other site 204773009570 delta subunit interface [polypeptide binding]; other site 204773009571 epsilon subunit interface [polypeptide binding]; other site 204773009572 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 204773009573 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 204773009574 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 204773009575 beta subunit interaction interface [polypeptide binding]; other site 204773009576 Walker A motif; other site 204773009577 ATP binding site [chemical binding]; other site 204773009578 Walker B motif; other site 204773009579 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 204773009580 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 204773009581 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 204773009582 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 204773009583 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 204773009584 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 204773009585 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 204773009586 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 204773009587 ATP synthase I chain; Region: ATP_synt_I; cl09170 204773009588 Serine hydrolase; Region: Ser_hydrolase; pfam06821 204773009589 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 204773009590 ParB-like nuclease domain; Region: ParB; smart00470 204773009591 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 204773009592 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 204773009593 P-loop; other site 204773009594 Magnesium ion binding site [ion binding]; other site 204773009595 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 204773009596 Magnesium ion binding site [ion binding]; other site 204773009597 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 204773009598 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 204773009599 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 204773009600 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 204773009601 S-adenosylmethionine binding site [chemical binding]; other site 204773009602 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 204773009603 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 204773009604 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 204773009605 hypothetical protein; Provisional; Region: PRK10621 204773009606 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 204773009607 choline dehydrogenase; Validated; Region: PRK02106 204773009608 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 204773009609 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 204773009610 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 204773009611 tetrameric interface [polypeptide binding]; other site 204773009612 NAD binding site [chemical binding]; other site 204773009613 catalytic residues [active] 204773009614 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 204773009615 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 204773009616 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 204773009617 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 204773009618 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 204773009619 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204773009620 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 204773009621 substrate binding pocket [chemical binding]; other site 204773009622 dimerization interface [polypeptide binding]; other site 204773009623 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 204773009624 PBP superfamily domain; Region: PBP_like_2; pfam12849 204773009625 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 204773009626 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 204773009627 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 204773009628 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 204773009629 catalytic loop [active] 204773009630 iron binding site [ion binding]; other site 204773009631 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 204773009632 4Fe-4S binding domain; Region: Fer4; pfam00037 204773009633 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 204773009634 [4Fe-4S] binding site [ion binding]; other site 204773009635 molybdopterin cofactor binding site; other site 204773009636 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 204773009637 molybdopterin cofactor binding site; other site 204773009638 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 204773009639 putative dimer interface [polypeptide binding]; other site 204773009640 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 204773009641 SLBB domain; Region: SLBB; pfam10531 204773009642 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 204773009643 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 204773009644 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 204773009645 putative dimer interface [polypeptide binding]; other site 204773009646 [2Fe-2S] cluster binding site [ion binding]; other site 204773009647 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 204773009648 PBP superfamily domain; Region: PBP_like; pfam12727 204773009649 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 204773009650 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 204773009651 Walker A/P-loop; other site 204773009652 ATP binding site [chemical binding]; other site 204773009653 Q-loop/lid; other site 204773009654 ABC transporter signature motif; other site 204773009655 Walker B; other site 204773009656 D-loop; other site 204773009657 H-loop/switch region; other site 204773009658 TOBE domain; Region: TOBE; cl01440 204773009659 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 204773009660 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 204773009661 dimer interface [polypeptide binding]; other site 204773009662 conserved gate region; other site 204773009663 putative PBP binding loops; other site 204773009664 ABC-ATPase subunit interface; other site 204773009665 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 204773009666 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 204773009667 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 204773009668 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 204773009669 molybdenum-pterin binding domain; Region: Mop; TIGR00638 204773009670 molybdenum-pterin binding domain; Region: Mop; TIGR00638 204773009671 Transcriptional regulator [Transcription]; Region: LysR; COG0583 204773009672 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 204773009673 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 204773009674 dimerization interface [polypeptide binding]; other site 204773009675 formate dehydrogenase; Provisional; Region: PRK07574 204773009676 NAD-dependent Formate Dehydrogenase (FDH); Region: FDH; cd05302 204773009677 dimerization interface [polypeptide binding]; other site 204773009678 ligand binding site [chemical binding]; other site 204773009679 NAD binding site [chemical binding]; other site 204773009680 catalytic site [active] 204773009681 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 204773009682 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 204773009683 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 204773009684 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 204773009685 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 204773009686 N-terminal plug; other site 204773009687 ligand-binding site [chemical binding]; other site 204773009688 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 204773009689 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 204773009690 putative substrate translocation pore; other site 204773009691 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 204773009692 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 204773009693 active site 204773009694 phosphorylation site [posttranslational modification] 204773009695 intermolecular recognition site; other site 204773009696 dimerization interface [polypeptide binding]; other site 204773009697 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 204773009698 Walker A motif; other site 204773009699 ATP binding site [chemical binding]; other site 204773009700 Walker B motif; other site 204773009701 arginine finger; other site 204773009702 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 204773009703 HAMP domain; Region: HAMP; pfam00672 204773009704 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 204773009705 dimer interface [polypeptide binding]; other site 204773009706 phosphorylation site [posttranslational modification] 204773009707 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 204773009708 ATP binding site [chemical binding]; other site 204773009709 Mg2+ binding site [ion binding]; other site 204773009710 G-X-G motif; other site 204773009711 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 204773009712 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 204773009713 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 204773009714 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 204773009715 active site 204773009716 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 204773009717 catalytic triad [active] 204773009718 dimer interface [polypeptide binding]; other site 204773009719 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 204773009720 active site 204773009721 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 204773009722 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 204773009723 dimerization interface [polypeptide binding]; other site 204773009724 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 204773009725 NAD binding site [chemical binding]; other site 204773009726 ligand binding site [chemical binding]; other site 204773009727 catalytic site [active] 204773009728 CheW-like domain; Region: CheW; pfam01584 204773009729 Asparaginase, found in various plant, animal and bacterial cells; Region: Asparaginase; smart00870 204773009730 active site 204773009731 Restriction alleviation protein Lar; Region: Lar_restr_allev; pfam14354 204773009732 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 204773009733 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 204773009734 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 204773009735 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 204773009736 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 204773009737 trmE is a tRNA modification GTPase; Region: trmE; cd04164 204773009738 G1 box; other site 204773009739 GTP/Mg2+ binding site [chemical binding]; other site 204773009740 Switch I region; other site 204773009741 G2 box; other site 204773009742 Switch II region; other site 204773009743 G3 box; other site 204773009744 G4 box; other site 204773009745 G5 box; other site 204773009746 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 204773009747 membrane protein insertase; Provisional; Region: PRK01318 204773009748 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 204773009749 Haemolytic domain; Region: Haemolytic; pfam01809 204773009750 Ribonuclease P; Region: Ribonuclease_P; cl00457 204773009751 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399