-- dump date 20140619_021341 -- class Genbank::misc_feature -- table misc_feature_note -- id note 360106000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 360106000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 360106000003 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 360106000004 Walker A motif; other site 360106000005 ATP binding site [chemical binding]; other site 360106000006 Walker B motif; other site 360106000007 arginine finger; other site 360106000008 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 360106000009 DnaA box-binding interface [nucleotide binding]; other site 360106000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 360106000011 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 360106000012 putative DNA binding surface [nucleotide binding]; other site 360106000013 dimer interface [polypeptide binding]; other site 360106000014 beta-clamp/clamp loader binding surface; other site 360106000015 beta-clamp/translesion DNA polymerase binding surface; other site 360106000016 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 360106000017 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 360106000018 Mg2+ binding site [ion binding]; other site 360106000019 G-X-G motif; other site 360106000020 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 360106000021 anchoring element; other site 360106000022 dimer interface [polypeptide binding]; other site 360106000023 ATP binding site [chemical binding]; other site 360106000024 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 360106000025 active site 360106000026 putative metal-binding site [ion binding]; other site 360106000027 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 360106000028 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 360106000029 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 360106000030 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 360106000031 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 360106000032 flagellar hook protein FlgE; Validated; Region: flgE; PRK05841 360106000033 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 360106000034 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK12812 360106000035 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 360106000036 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 360106000037 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 360106000038 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 360106000039 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 360106000040 putative substrate translocation pore; other site 360106000041 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 360106000042 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 360106000043 G1 box; other site 360106000044 putative GEF interaction site [polypeptide binding]; other site 360106000045 GTP/Mg2+ binding site [chemical binding]; other site 360106000046 Switch I region; other site 360106000047 G2 box; other site 360106000048 G3 box; other site 360106000049 Switch II region; other site 360106000050 G4 box; other site 360106000051 G5 box; other site 360106000052 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 360106000053 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 360106000054 AAA domain; Region: AAA_14; pfam13173 360106000055 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 360106000056 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 360106000057 RNA/DNA hybrid binding site [nucleotide binding]; other site 360106000058 active site 360106000059 hypothetical protein; Provisional; Region: PRK14013 360106000060 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 360106000061 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 360106000062 Walker A/P-loop; other site 360106000063 ATP binding site [chemical binding]; other site 360106000064 Q-loop/lid; other site 360106000065 ABC transporter signature motif; other site 360106000066 Walker B; other site 360106000067 D-loop; other site 360106000068 H-loop/switch region; other site 360106000069 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 360106000070 Sel1-like repeats; Region: SEL1; smart00671 360106000071 Sel1-like repeats; Region: SEL1; smart00671 360106000072 Sel1-like repeats; Region: SEL1; smart00671 360106000073 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 360106000074 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 360106000075 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 360106000076 ATP cone domain; Region: ATP-cone; pfam03477 360106000077 Class III ribonucleotide reductase; Region: RNR_III; cd01675 360106000078 effector binding site; other site 360106000079 active site 360106000080 Zn binding site [ion binding]; other site 360106000081 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 360106000082 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 360106000083 active site 360106000084 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 360106000085 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 360106000086 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 360106000087 FeS/SAM binding site; other site 360106000088 Cytolethal distending toxin A/C family; Region: CDtoxinA; pfam03498 360106000089 CdtB, the catalytic DNase I-like subunit of cytolethal distending toxin (CDT) protein; Region: CdtB; cd09081 360106000090 putative catalytic site [active] 360106000091 CdtC interface [polypeptide binding]; other site 360106000092 heterotrimer interface [polypeptide binding]; other site 360106000093 CdtA interface [polypeptide binding]; other site 360106000094 putative metal binding site [ion binding]; other site 360106000095 putative phosphate binding site [ion binding]; other site 360106000096 Cytolethal distending toxin A/C family; Region: CDtoxinA; pfam03498 360106000097 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 360106000098 putative sugar binding sites [chemical binding]; other site 360106000099 Q-X-W motif; other site 360106000100 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 360106000101 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 360106000102 dimer interface [polypeptide binding]; other site 360106000103 putative radical transfer pathway; other site 360106000104 diiron center [ion binding]; other site 360106000105 tyrosyl radical; other site 360106000106 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 360106000107 Predicted amidohydrolase [General function prediction only]; Region: COG0388 360106000108 active site 360106000109 catalytic triad [active] 360106000110 dimer interface [polypeptide binding]; other site 360106000111 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 360106000112 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 360106000113 S-adenosylmethionine binding site [chemical binding]; other site 360106000114 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 360106000115 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 360106000116 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 360106000117 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 360106000118 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 360106000119 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 360106000120 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 360106000121 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 360106000122 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 360106000123 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 360106000124 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 360106000125 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 360106000126 putative translocon binding site; other site 360106000127 protein-rRNA interface [nucleotide binding]; other site 360106000128 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 360106000129 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 360106000130 G-X-X-G motif; other site 360106000131 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 360106000132 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 360106000133 23S rRNA interface [nucleotide binding]; other site 360106000134 5S rRNA interface [nucleotide binding]; other site 360106000135 putative antibiotic binding site [chemical binding]; other site 360106000136 L25 interface [polypeptide binding]; other site 360106000137 L27 interface [polypeptide binding]; other site 360106000138 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 360106000139 putative translocon interaction site; other site 360106000140 23S rRNA interface [nucleotide binding]; other site 360106000141 signal recognition particle (SRP54) interaction site; other site 360106000142 L23 interface [polypeptide binding]; other site 360106000143 trigger factor interaction site; other site 360106000144 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 360106000145 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 360106000146 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 360106000147 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 360106000148 RNA binding site [nucleotide binding]; other site 360106000149 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 360106000150 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 360106000151 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 360106000152 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 360106000153 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 360106000154 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 360106000155 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 360106000156 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 360106000157 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 360106000158 5S rRNA interface [nucleotide binding]; other site 360106000159 23S rRNA interface [nucleotide binding]; other site 360106000160 L5 interface [polypeptide binding]; other site 360106000161 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 360106000162 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 360106000163 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 360106000164 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 360106000165 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 360106000166 SecY translocase; Region: SecY; pfam00344 360106000167 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 360106000168 active site 360106000169 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 360106000170 rRNA binding site [nucleotide binding]; other site 360106000171 predicted 30S ribosome binding site; other site 360106000172 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 360106000173 30S ribosomal protein S13; Region: bact_S13; TIGR03631 360106000174 30S ribosomal protein S11; Validated; Region: PRK05309 360106000175 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 360106000176 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 360106000177 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 360106000178 RNA binding surface [nucleotide binding]; other site 360106000179 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 360106000180 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 360106000181 alphaNTD homodimer interface [polypeptide binding]; other site 360106000182 alphaNTD - beta interaction site [polypeptide binding]; other site 360106000183 alphaNTD - beta' interaction site [polypeptide binding]; other site 360106000184 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 360106000185 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 360106000186 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 360106000187 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 360106000188 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360106000189 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 360106000190 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 360106000191 tetramerization interface [polypeptide binding]; other site 360106000192 active site 360106000193 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 360106000194 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 360106000195 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360106000196 dimer interface [polypeptide binding]; other site 360106000197 putative CheW interface [polypeptide binding]; other site 360106000198 hypothetical protein; Provisional; Region: PRK03762 360106000199 PDZ domain; Region: PDZ_2; pfam13180 360106000200 protein binding site [polypeptide binding]; other site 360106000201 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 360106000202 protein binding site [polypeptide binding]; other site 360106000203 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 360106000204 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 360106000205 substrate binding pocket [chemical binding]; other site 360106000206 chain length determination region; other site 360106000207 substrate-Mg2+ binding site; other site 360106000208 catalytic residues [active] 360106000209 aspartate-rich region 1; other site 360106000210 active site lid residues [active] 360106000211 aspartate-rich region 2; other site 360106000212 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 360106000213 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 360106000214 TPP-binding site [chemical binding]; other site 360106000215 dimer interface [polypeptide binding]; other site 360106000216 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 360106000217 PYR/PP interface [polypeptide binding]; other site 360106000218 dimer interface [polypeptide binding]; other site 360106000219 TPP binding site [chemical binding]; other site 360106000220 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 360106000221 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 360106000222 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 360106000223 NAD binding site [chemical binding]; other site 360106000224 catalytic residues [active] 360106000225 substrate binding site [chemical binding]; other site 360106000226 Protein of unknown function (DUF466); Region: DUF466; pfam04328 360106000227 carbon starvation protein A; Provisional; Region: PRK15015 360106000228 Carbon starvation protein CstA; Region: CstA; pfam02554 360106000229 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 360106000230 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 360106000231 thiS-thiF/thiG interaction site; other site 360106000232 ThiS-like ubiquitin; Region: ThiS-like; pfam14453 360106000233 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 360106000234 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 360106000235 ATP binding site [chemical binding]; other site 360106000236 substrate interface [chemical binding]; other site 360106000237 thiazole synthase; Reviewed; Region: thiG; PRK00208 360106000238 phosphate binding site [ion binding]; other site 360106000239 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 360106000240 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 360106000241 FeS/SAM binding site; other site 360106000242 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 360106000243 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 360106000244 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 360106000245 active site 360106000246 tetramer interface; other site 360106000247 glucose-6-phosphate isomerase; Provisional; Region: PRK03868 360106000248 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 360106000249 active site 360106000250 dimer interface [polypeptide binding]; other site 360106000251 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 360106000252 dimer interface [polypeptide binding]; other site 360106000253 active site 360106000254 Ferritin-like domain; Region: Ferritin; pfam00210 360106000255 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 360106000256 dimerization interface [polypeptide binding]; other site 360106000257 DPS ferroxidase diiron center [ion binding]; other site 360106000258 ion pore; other site 360106000259 Uncharacterized conserved protein [Function unknown]; Region: COG2353 360106000260 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 360106000261 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 360106000262 AAA domain; Region: AAA_26; pfam13500 360106000263 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 360106000264 Methyltransferase domain; Region: Methyltransf_11; pfam08241 360106000265 Protein of unknown function (DUF452); Region: DUF452; cl01062 360106000266 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 360106000267 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 360106000268 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360106000269 catalytic residue [active] 360106000270 thiamine monophosphate kinase; Provisional; Region: PRK05731 360106000271 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 360106000272 ATP binding site [chemical binding]; other site 360106000273 dimerization interface [polypeptide binding]; other site 360106000274 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 360106000275 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 360106000276 Permutation of conserved domain; other site 360106000277 active site 360106000278 flagellar protein FliS; Validated; Region: fliS; PRK05685 360106000279 flagellar capping protein; Provisional; Region: PRK12765 360106000280 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 360106000281 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 360106000282 flagellar protein FlaG; Provisional; Region: PRK08452 360106000283 cryptic adenine deaminase; Provisional; Region: PRK10027 360106000284 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 360106000285 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 360106000286 S-adenosylmethionine binding site [chemical binding]; other site 360106000287 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 360106000288 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 360106000289 Rod binding protein; Region: Rod-binding; cl01626 360106000290 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 360106000291 FlgN protein; Region: FlgN; pfam05130 360106000292 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 360106000293 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 360106000294 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 360106000295 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 360106000296 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 360106000297 active site 360106000298 substrate binding site [chemical binding]; other site 360106000299 metal binding site [ion binding]; metal-binding site 360106000300 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 360106000301 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 360106000302 Substrate binding site; other site 360106000303 Cupin domain; Region: Cupin_2; cl17218 360106000304 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 360106000305 Ligand Binding Site [chemical binding]; other site 360106000306 glutamylglutaminyl-tRNA synthetase; Provisional; Region: PRK12410 360106000307 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360106000308 active site 360106000309 HIGH motif; other site 360106000310 nucleotide binding site [chemical binding]; other site 360106000311 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 360106000312 active site 360106000313 KMSKS motif; other site 360106000314 YGGT family; Region: YGGT; pfam02325 360106000315 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 360106000316 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 360106000317 N-acetyl-D-glucosamine binding site [chemical binding]; other site 360106000318 catalytic residue [active] 360106000319 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4378 360106000320 flavodoxin FldA; Validated; Region: PRK09267 360106000321 S-ribosylhomocysteinase; Provisional; Region: PRK02260 360106000322 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 360106000323 ligand binding site [chemical binding]; other site 360106000324 active site 360106000325 UGI interface [polypeptide binding]; other site 360106000326 catalytic site [active] 360106000327 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 360106000328 23S rRNA binding site [nucleotide binding]; other site 360106000329 L21 binding site [polypeptide binding]; other site 360106000330 L13 binding site [polypeptide binding]; other site 360106000331 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 360106000332 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 360106000333 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 360106000334 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 360106000335 dimer interface [polypeptide binding]; other site 360106000336 conserved gate region; other site 360106000337 putative PBP binding loops; other site 360106000338 ABC-ATPase subunit interface; other site 360106000339 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 360106000340 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 360106000341 dimer interface [polypeptide binding]; other site 360106000342 conserved gate region; other site 360106000343 putative PBP binding loops; other site 360106000344 ABC-ATPase subunit interface; other site 360106000345 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 360106000346 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 360106000347 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 360106000348 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 360106000349 HlyD family secretion protein; Region: HlyD_3; pfam13437 360106000350 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 360106000351 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 360106000352 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 360106000353 4Fe-4S binding domain; Region: Fer4_5; pfam12801 360106000354 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 360106000355 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 360106000356 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 360106000357 Endopeptidases belonging to membrane-bound hydrogen evolving hydrogenase group. In hydrogenase 3 from E coli, the maturation of the large subunit (HycE) requires the cleavage of a C-terminal peptide by the endopeptidase HycI, before the final formation...; Region: H2MP_MemB-H2evol; cd06067 360106000358 nickel binding site [ion binding]; other site 360106000359 Formate hydrogenlyase maturation protein HycH; Region: HycH; cl06472 360106000360 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 360106000361 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 360106000362 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 360106000363 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 360106000364 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 360106000365 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 360106000366 NADH dehydrogenase subunit 2; Provisional; Region: ND2; MTH00144 360106000367 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 360106000368 hydrogenase 4 membrane subunit; Provisional; Region: hyfE; PRK11492 360106000369 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 360106000370 NADH dehydrogenase; Region: NADHdh; cl00469 360106000371 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 360106000372 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 360106000373 4Fe-4S binding domain; Region: Fer4; cl02805 360106000374 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 360106000375 active sites [active] 360106000376 tetramer interface [polypeptide binding]; other site 360106000377 Campylobacter major outer membrane protein; Region: Campylo_MOMP; pfam05538 360106000378 outer membrane porin, OprD family; Region: OprD; pfam03573 360106000379 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 360106000380 L-aspartate oxidase; Provisional; Region: PRK06175 360106000381 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 360106000382 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 360106000383 Cache domain; Region: Cache_1; pfam02743 360106000384 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 360106000385 ATP binding site [chemical binding]; other site 360106000386 Mg2+ binding site [ion binding]; other site 360106000387 G-X-G motif; other site 360106000388 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360106000389 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360106000390 active site 360106000391 phosphorylation site [posttranslational modification] 360106000392 intermolecular recognition site; other site 360106000393 dimerization interface [polypeptide binding]; other site 360106000394 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 360106000395 DNA binding site [nucleotide binding] 360106000396 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 360106000397 trimer interface [polypeptide binding]; other site 360106000398 dimer interface [polypeptide binding]; other site 360106000399 putative active site [active] 360106000400 Protein of unknown function (DUF493); Region: DUF493; cl01102 360106000401 Predicted metal-binding protein [General function prediction only]; Region: COG3019 360106000402 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 360106000403 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 360106000404 putative transporter; Reviewed; Region: PRK12369 360106000405 Peptidase family M48; Region: Peptidase_M48; pfam01435 360106000406 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 360106000407 L-lactate permease; Region: Lactate_perm; cl00701 360106000408 Domain of unknown function DUF21; Region: DUF21; pfam01595 360106000409 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 360106000410 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 360106000411 Transporter associated domain; Region: CorC_HlyC; smart01091 360106000412 DsrE/DsrF-like family; Region: DrsE; pfam02635 360106000413 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 360106000414 NADH dehydrogenase subunit B; Validated; Region: PRK06411 360106000415 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 360106000416 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 360106000417 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 360106000418 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 360106000419 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 360106000420 putative dimer interface [polypeptide binding]; other site 360106000421 [2Fe-2S] cluster binding site [ion binding]; other site 360106000422 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 360106000423 SLBB domain; Region: SLBB; pfam10531 360106000424 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 360106000425 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 360106000426 catalytic loop [active] 360106000427 iron binding site [ion binding]; other site 360106000428 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 360106000429 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 360106000430 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 360106000431 NADH dehydrogenase; Region: NADHdh; cl00469 360106000432 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 360106000433 4Fe-4S binding domain; Region: Fer4; pfam00037 360106000434 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 360106000435 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 360106000436 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 360106000437 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 360106000438 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 360106000439 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 360106000440 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 360106000441 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 360106000442 proton-translocating NADH-quinone oxidoreductase, chain N; Region: NDH_I_N; TIGR01770 360106000443 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 360106000444 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 360106000445 cobalt transport protein CbiM; Validated; Region: PRK06265 360106000446 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 360106000447 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 360106000448 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 360106000449 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 360106000450 Walker A/P-loop; other site 360106000451 ATP binding site [chemical binding]; other site 360106000452 Q-loop/lid; other site 360106000453 ABC transporter signature motif; other site 360106000454 Walker B; other site 360106000455 D-loop; other site 360106000456 H-loop/switch region; other site 360106000457 DNA topoisomerase I; Validated; Region: PRK05582 360106000458 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 360106000459 active site 360106000460 interdomain interaction site; other site 360106000461 putative metal-binding site [ion binding]; other site 360106000462 nucleotide binding site [chemical binding]; other site 360106000463 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 360106000464 domain I; other site 360106000465 DNA binding groove [nucleotide binding] 360106000466 phosphate binding site [ion binding]; other site 360106000467 domain II; other site 360106000468 domain III; other site 360106000469 nucleotide binding site [chemical binding]; other site 360106000470 catalytic site [active] 360106000471 domain IV; other site 360106000472 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 360106000473 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 360106000474 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 360106000475 biotin synthase; Provisional; Region: PRK08508 360106000476 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 360106000477 FeS/SAM binding site; other site 360106000478 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 360106000479 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 360106000480 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 360106000481 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 360106000482 dimer interface [polypeptide binding]; other site 360106000483 Citrate synthase; Region: Citrate_synt; pfam00285 360106000484 active site 360106000485 citrylCoA binding site [chemical binding]; other site 360106000486 NADH binding [chemical binding]; other site 360106000487 cationic pore residues; other site 360106000488 oxalacetate/citrate binding site [chemical binding]; other site 360106000489 coenzyme A binding site [chemical binding]; other site 360106000490 catalytic triad [active] 360106000491 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 360106000492 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 360106000493 active site 360106000494 PBP superfamily domain; Region: PBP_like_2; cl17296 360106000495 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 360106000496 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 360106000497 dimer interface [polypeptide binding]; other site 360106000498 conserved gate region; other site 360106000499 putative PBP binding loops; other site 360106000500 ABC-ATPase subunit interface; other site 360106000501 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 360106000502 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 360106000503 dimer interface [polypeptide binding]; other site 360106000504 conserved gate region; other site 360106000505 putative PBP binding loops; other site 360106000506 ABC-ATPase subunit interface; other site 360106000507 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 360106000508 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 360106000509 Walker A/P-loop; other site 360106000510 ATP binding site [chemical binding]; other site 360106000511 Q-loop/lid; other site 360106000512 ABC transporter signature motif; other site 360106000513 Walker B; other site 360106000514 D-loop; other site 360106000515 H-loop/switch region; other site 360106000516 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 360106000517 Major Facilitator Superfamily; Region: MFS_1; pfam07690 360106000518 putative substrate translocation pore; other site 360106000519 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360106000520 dimer interface [polypeptide binding]; other site 360106000521 putative CheW interface [polypeptide binding]; other site 360106000522 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 360106000523 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 360106000524 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360106000525 Coenzyme A binding pocket [chemical binding]; other site 360106000526 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 360106000527 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 360106000528 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 360106000529 dimer interface [polypeptide binding]; other site 360106000530 putative functional site; other site 360106000531 putative MPT binding site; other site 360106000532 Cache domain; Region: Cache_1; pfam02743 360106000533 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 360106000534 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360106000535 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 360106000536 MoaE homodimer interface [polypeptide binding]; other site 360106000537 MoaD interaction [polypeptide binding]; other site 360106000538 active site residues [active] 360106000539 ThiS family; Region: ThiS; pfam02597 360106000540 charged pocket; other site 360106000541 hydrophobic patch; other site 360106000542 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 360106000543 Domain of unknown function (DUF814); Region: DUF814; pfam05670 360106000544 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 360106000545 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 360106000546 substrate binding site [chemical binding]; other site 360106000547 ligand binding site [chemical binding]; other site 360106000548 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 360106000549 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 360106000550 GTP binding site; other site 360106000551 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 360106000552 dimerization interface [polypeptide binding]; other site 360106000553 substrate binding site [chemical binding]; other site 360106000554 active site 360106000555 calcium binding site [ion binding]; other site 360106000556 AMIN domain; Region: AMIN; pfam11741 360106000557 enolase; Provisional; Region: eno; PRK00077 360106000558 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 360106000559 dimer interface [polypeptide binding]; other site 360106000560 metal binding site [ion binding]; metal-binding site 360106000561 substrate binding pocket [chemical binding]; other site 360106000562 recombinase A; Provisional; Region: recA; PRK09354 360106000563 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 360106000564 hexamer interface [polypeptide binding]; other site 360106000565 Walker A motif; other site 360106000566 ATP binding site [chemical binding]; other site 360106000567 Walker B motif; other site 360106000568 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 360106000569 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 360106000570 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13904 360106000571 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 360106000572 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 360106000573 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 360106000574 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 360106000575 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 360106000576 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 360106000577 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 360106000578 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 360106000579 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 360106000580 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 360106000581 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 360106000582 active site 360106000583 Zn binding site [ion binding]; other site 360106000584 UGMP family protein; Validated; Region: PRK09604 360106000585 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 360106000586 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 360106000587 tRNA dimethylallyltransferase; Region: miaA; TIGR00174 360106000588 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 360106000589 prenyltransferase; Reviewed; Region: ubiA; PRK12874 360106000590 UbiA prenyltransferase family; Region: UbiA; pfam01040 360106000591 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 360106000592 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 360106000593 FeS/SAM binding site; other site 360106000594 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 360106000595 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 360106000596 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 360106000597 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 360106000598 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 360106000599 dimer interface [polypeptide binding]; other site 360106000600 active site 360106000601 metal binding site [ion binding]; metal-binding site 360106000602 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 360106000603 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 360106000604 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 360106000605 RNA methyltransferase, RsmE family; Region: TIGR00046 360106000606 DNA polymerase I; Provisional; Region: PRK05755 360106000607 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 360106000608 active site 360106000609 metal binding site 1 [ion binding]; metal-binding site 360106000610 putative 5' ssDNA interaction site; other site 360106000611 metal binding site 3; metal-binding site 360106000612 metal binding site 2 [ion binding]; metal-binding site 360106000613 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 360106000614 putative DNA binding site [nucleotide binding]; other site 360106000615 putative metal binding site [ion binding]; other site 360106000616 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 360106000617 active site 360106000618 catalytic site [active] 360106000619 substrate binding site [chemical binding]; other site 360106000620 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 360106000621 active site 360106000622 DNA binding site [nucleotide binding] 360106000623 catalytic site [active] 360106000624 flagellar motor protein MotA; Validated; Region: PRK08456 360106000625 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 360106000626 flagellar motor protein MotB; Reviewed; Region: motB; PRK08457 360106000627 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 360106000628 ligand binding site [chemical binding]; other site 360106000629 Ferredoxin [Energy production and conversion]; Region: COG1146 360106000630 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 360106000631 active site 360106000632 multimer interface [polypeptide binding]; other site 360106000633 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 360106000634 putative phosphate acyltransferase; Provisional; Region: PRK05331 360106000635 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 360106000636 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 360106000637 dimer interface [polypeptide binding]; other site 360106000638 active site 360106000639 CoA binding pocket [chemical binding]; other site 360106000640 PilZ domain; Region: PilZ; pfam07238 360106000641 Domain of unknown function DUF87; Region: DUF87; pfam01935 360106000642 HerA helicase [Replication, recombination, and repair]; Region: COG0433 360106000643 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 360106000644 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 360106000645 active site 360106000646 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360106000647 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360106000648 active site 360106000649 phosphorylation site [posttranslational modification] 360106000650 intermolecular recognition site; other site 360106000651 dimerization interface [polypeptide binding]; other site 360106000652 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 360106000653 DNA binding site [nucleotide binding] 360106000654 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360106000655 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 360106000656 dimer interface [polypeptide binding]; other site 360106000657 phosphorylation site [posttranslational modification] 360106000658 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 360106000659 Mg2+ binding site [ion binding]; other site 360106000660 G-X-G motif; other site 360106000661 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 360106000662 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 360106000663 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 360106000664 putative recombination protein RecO; Provisional; Region: PRK13908 360106000665 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 360106000666 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 360106000667 FMN binding site [chemical binding]; other site 360106000668 active site 360106000669 catalytic residues [active] 360106000670 substrate binding site [chemical binding]; other site 360106000671 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 360106000672 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 360106000673 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 360106000674 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 360106000675 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 360106000676 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 360106000677 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 360106000678 dimer interface [polypeptide binding]; other site 360106000679 decamer (pentamer of dimers) interface [polypeptide binding]; other site 360106000680 catalytic triad [active] 360106000681 peroxidatic and resolving cysteines [active] 360106000682 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 360106000683 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360106000684 catalytic residue [active] 360106000685 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 360106000686 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 360106000687 generic binding surface II; other site 360106000688 generic binding surface I; other site 360106000689 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 360106000690 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 360106000691 S-adenosylmethionine binding site [chemical binding]; other site 360106000692 Clostridium thermocellum (Cth)TTM and similar proteins, a subgroup of the CYTH-like superfamily; Region: CYTH-like_CthTTM-like; cd07761 360106000693 putative active site [active] 360106000694 putative metal binding residues [ion binding]; other site 360106000695 signature motif; other site 360106000696 putative dimer interface [polypeptide binding]; other site 360106000697 putative phosphate binding site [ion binding]; other site 360106000698 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 360106000699 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 360106000700 HlyD family secretion protein; Region: HlyD_3; pfam13437 360106000701 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 360106000702 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 360106000703 Walker A/P-loop; other site 360106000704 ATP binding site [chemical binding]; other site 360106000705 Q-loop/lid; other site 360106000706 ABC transporter signature motif; other site 360106000707 Walker B; other site 360106000708 D-loop; other site 360106000709 H-loop/switch region; other site 360106000710 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 360106000711 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360106000712 Walker A/P-loop; other site 360106000713 ATP binding site [chemical binding]; other site 360106000714 Q-loop/lid; other site 360106000715 ABC transporter signature motif; other site 360106000716 Walker B; other site 360106000717 D-loop; other site 360106000718 H-loop/switch region; other site 360106000719 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 360106000720 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 360106000721 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 360106000722 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 360106000723 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 360106000724 metal binding site 2 [ion binding]; metal-binding site 360106000725 putative DNA binding helix; other site 360106000726 metal binding site 1 [ion binding]; metal-binding site 360106000727 structural Zn2+ binding site [ion binding]; other site 360106000728 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 360106000729 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 360106000730 TPP-binding site; other site 360106000731 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 360106000732 PYR/PP interface [polypeptide binding]; other site 360106000733 dimer interface [polypeptide binding]; other site 360106000734 TPP binding site [chemical binding]; other site 360106000735 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 360106000736 flagellar assembly protein H; Validated; Region: fliH; PRK06669 360106000737 Violaxanthin de-epoxidase (VDE); Region: VDE; cl06253 360106000738 Flagellar assembly protein FliH; Region: FliH; pfam02108 360106000739 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 360106000740 FliG C-terminal domain; Region: FliG_C; pfam01706 360106000741 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 360106000742 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 360106000743 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 360106000744 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 360106000745 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 360106000746 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360106000747 homodimer interface [polypeptide binding]; other site 360106000748 catalytic residue [active] 360106000749 Chorismate mutase type II; Region: CM_2; cl00693 360106000750 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 360106000751 Prephenate dehydratase; Region: PDT; pfam00800 360106000752 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 360106000753 putative L-Phe binding site [chemical binding]; other site 360106000754 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 360106000755 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 360106000756 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 360106000757 diaminopimelate decarboxylase; Region: lysA; TIGR01048 360106000758 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 360106000759 active site 360106000760 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360106000761 substrate binding site [chemical binding]; other site 360106000762 catalytic residues [active] 360106000763 dimer interface [polypeptide binding]; other site 360106000764 Predicted permeases [General function prediction only]; Region: COG0795 360106000765 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 360106000766 Uncharacterized conserved protein [Function unknown]; Region: COG0398 360106000767 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 360106000768 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 360106000769 active site 360106000770 dimerization interface [polypeptide binding]; other site 360106000771 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 360106000772 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 360106000773 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 360106000774 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 360106000775 intersubunit interface [polypeptide binding]; other site 360106000776 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 360106000777 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 360106000778 ABC-ATPase subunit interface; other site 360106000779 dimer interface [polypeptide binding]; other site 360106000780 putative PBP binding regions; other site 360106000781 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 360106000782 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 360106000783 Walker A/P-loop; other site 360106000784 ATP binding site [chemical binding]; other site 360106000785 Q-loop/lid; other site 360106000786 ABC transporter signature motif; other site 360106000787 Walker B; other site 360106000788 D-loop; other site 360106000789 H-loop/switch region; other site 360106000790 Methyltransferase domain; Region: Methyltransf_31; pfam13847 360106000791 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 360106000792 S-adenosylmethionine binding site [chemical binding]; other site 360106000793 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 360106000794 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 360106000795 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 360106000796 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 360106000797 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 360106000798 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 360106000799 NAD(P) binding pocket [chemical binding]; other site 360106000800 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 360106000801 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 360106000802 Predicted methyltransferases [General function prediction only]; Region: COG0313 360106000803 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 360106000804 putative SAM binding site [chemical binding]; other site 360106000805 putative homodimer interface [polypeptide binding]; other site 360106000806 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 360106000807 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 360106000808 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 360106000809 aspartate aminotransferase; Provisional; Region: PRK08636 360106000810 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 360106000811 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360106000812 homodimer interface [polypeptide binding]; other site 360106000813 catalytic residue [active] 360106000814 homoserine dehydrogenase; Provisional; Region: PRK06349 360106000815 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 360106000816 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 360106000817 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 360106000818 hypothetical protein; Reviewed; Region: PRK12497 360106000819 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 360106000820 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 360106000821 catalytic residues [active] 360106000822 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 360106000823 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 360106000824 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360106000825 conjugal transfer surface exclusion protein TraT; Provisional; Region: PRK13731 360106000826 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 360106000827 dihydrodipicolinate reductase; Provisional; Region: PRK00048 360106000828 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 360106000829 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 360106000830 amidophosphoribosyltransferase; Provisional; Region: PRK08525 360106000831 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 360106000832 active site 360106000833 tetramer interface [polypeptide binding]; other site 360106000834 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360106000835 active site 360106000836 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 360106000837 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 360106000838 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 360106000839 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 360106000840 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 360106000841 metal binding site [ion binding]; metal-binding site 360106000842 HflC protein; Region: hflC; TIGR01932 360106000843 SPFH domain / Band 7 family; Region: Band_7; pfam01145 360106000844 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 360106000845 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 360106000846 homodimer interface [polypeptide binding]; other site 360106000847 substrate-cofactor binding pocket; other site 360106000848 catalytic residue [active] 360106000849 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 360106000850 non-specific DNA binding site [nucleotide binding]; other site 360106000851 salt bridge; other site 360106000852 sequence-specific DNA binding site [nucleotide binding]; other site 360106000853 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 360106000854 active site 1 [active] 360106000855 dimer interface [polypeptide binding]; other site 360106000856 hexamer interface [polypeptide binding]; other site 360106000857 active site 2 [active] 360106000858 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 360106000859 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 360106000860 catalytic triad [active] 360106000861 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 360106000862 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 360106000863 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 360106000864 Ligand Binding Site [chemical binding]; other site 360106000865 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 360106000866 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 360106000867 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 360106000868 active site 360106000869 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 360106000870 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 360106000871 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 360106000872 Walker A motif; other site 360106000873 ATP binding site [chemical binding]; other site 360106000874 Walker B motif; other site 360106000875 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 360106000876 rod shape-determining protein MreB; Provisional; Region: PRK13927 360106000877 MreB and similar proteins; Region: MreB_like; cd10225 360106000878 nucleotide binding site [chemical binding]; other site 360106000879 Mg binding site [ion binding]; other site 360106000880 putative protofilament interaction site [polypeptide binding]; other site 360106000881 RodZ interaction site [polypeptide binding]; other site 360106000882 rod shape-determining protein MreC; Provisional; Region: PRK13922 360106000883 rod shape-determining protein MreC; Region: MreC; pfam04085 360106000884 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 360106000885 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 360106000886 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 360106000887 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 360106000888 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 360106000889 ATP-grasp domain; Region: ATP-grasp_4; cl17255 360106000890 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 360106000891 IMP binding site; other site 360106000892 dimer interface [polypeptide binding]; other site 360106000893 interdomain contacts; other site 360106000894 partial ornithine binding site; other site 360106000895 molybdenum transport protein ModD; Provisional; Region: PRK06096 360106000896 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 360106000897 active site 360106000898 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 360106000899 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 360106000900 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 360106000901 putative active site [active] 360106000902 heme pocket [chemical binding]; other site 360106000903 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 360106000904 putative active site [active] 360106000905 heme pocket [chemical binding]; other site 360106000906 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 360106000907 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360106000908 dimer interface [polypeptide binding]; other site 360106000909 putative CheW interface [polypeptide binding]; other site 360106000910 Nuclease-related domain; Region: NERD; pfam08378 360106000911 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 360106000912 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 360106000913 putative ATP binding site [chemical binding]; other site 360106000914 putative substrate interface [chemical binding]; other site 360106000915 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 360106000916 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 360106000917 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 360106000918 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 360106000919 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 360106000920 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 360106000921 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 360106000922 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 360106000923 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 360106000924 putative active site [active] 360106000925 putative metal binding site [ion binding]; other site 360106000926 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 360106000927 putative CheA interaction surface; other site 360106000928 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 360106000929 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360106000930 active site 360106000931 phosphorylation site [posttranslational modification] 360106000932 intermolecular recognition site; other site 360106000933 dimerization interface [polypeptide binding]; other site 360106000934 chemotaxis protein CheA; Provisional; Region: PRK10547 360106000935 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 360106000936 putative binding surface; other site 360106000937 active site 360106000938 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 360106000939 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 360106000940 ATP binding site [chemical binding]; other site 360106000941 Mg2+ binding site [ion binding]; other site 360106000942 G-X-G motif; other site 360106000943 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 360106000944 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 360106000945 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360106000946 active site 360106000947 phosphorylation site [posttranslational modification] 360106000948 intermolecular recognition site; other site 360106000949 dimerization interface [polypeptide binding]; other site 360106000950 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 360106000951 putative CheA interaction surface; other site 360106000952 phosphoserine phosphatase SerB; Region: serB; TIGR00338 360106000953 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 360106000954 motif II; other site 360106000955 Class I aldolases; Region: Aldolase_Class_I; cl17187 360106000956 transaldolase; Provisional; Region: PRK03903 360106000957 catalytic residue [active] 360106000958 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 360106000959 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 360106000960 Walker A motif; other site 360106000961 ATP binding site [chemical binding]; other site 360106000962 Walker B motif; other site 360106000963 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 360106000964 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 360106000965 5S rRNA interface [nucleotide binding]; other site 360106000966 CTC domain interface [polypeptide binding]; other site 360106000967 L16 interface [polypeptide binding]; other site 360106000968 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 360106000969 putative active site [active] 360106000970 catalytic residue [active] 360106000971 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 360106000972 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 360106000973 dimer interface [polypeptide binding]; other site 360106000974 active site 360106000975 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360106000976 catalytic residues [active] 360106000977 substrate binding site [chemical binding]; other site 360106000978 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 360106000979 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 360106000980 CPxP motif; other site 360106000981 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 360106000982 dimerization interface [polypeptide binding]; other site 360106000983 putative ATP binding site [chemical binding]; other site 360106000984 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 360106000985 dimer interface [polypeptide binding]; other site 360106000986 FMN binding site [chemical binding]; other site 360106000987 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 360106000988 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 360106000989 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 360106000990 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 360106000991 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 360106000992 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 360106000993 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 360106000994 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 360106000995 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 360106000996 transmembrane helices; other site 360106000997 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 360106000998 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 360106000999 Domain of unknown function DUF302; Region: DUF302; cl01364 360106001000 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 360106001001 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 360106001002 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional; Region: PRK14607 360106001003 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 360106001004 glutamine binding [chemical binding]; other site 360106001005 catalytic triad [active] 360106001006 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 360106001007 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 360106001008 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 360106001009 active site 360106001010 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 360106001011 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 360106001012 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360106001013 catalytic residue [active] 360106001014 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 360106001015 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 360106001016 substrate binding site [chemical binding]; other site 360106001017 active site 360106001018 catalytic residues [active] 360106001019 heterodimer interface [polypeptide binding]; other site 360106001020 flagellar motor switch protein; Validated; Region: PRK08433 360106001021 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 360106001022 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 360106001023 putative PBP binding loops; other site 360106001024 dimer interface [polypeptide binding]; other site 360106001025 ABC-ATPase subunit interface; other site 360106001026 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 360106001027 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 360106001028 Walker A/P-loop; other site 360106001029 ATP binding site [chemical binding]; other site 360106001030 Q-loop/lid; other site 360106001031 ABC transporter signature motif; other site 360106001032 Walker B; other site 360106001033 D-loop; other site 360106001034 H-loop/switch region; other site 360106001035 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 360106001036 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 360106001037 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 360106001038 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 360106001039 molybdenum-pterin binding domain; Region: Mop; TIGR00638 360106001040 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 360106001041 VacJ like lipoprotein; Region: VacJ; cl01073 360106001042 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 360106001043 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 360106001044 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 360106001045 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 360106001046 BON domain; Region: BON; pfam04972 360106001047 PAS domain S-box; Region: sensory_box; TIGR00229 360106001048 PAS fold; Region: PAS_3; pfam08447 360106001049 PAS domain; Region: PAS_9; pfam13426 360106001050 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 360106001051 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 360106001052 PAS domain; Region: PAS_9; pfam13426 360106001053 putative active site [active] 360106001054 heme pocket [chemical binding]; other site 360106001055 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360106001056 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360106001057 metal binding site [ion binding]; metal-binding site 360106001058 active site 360106001059 I-site; other site 360106001060 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 360106001061 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12293 360106001062 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 360106001063 motif 1; other site 360106001064 dimer interface [polypeptide binding]; other site 360106001065 active site 360106001066 motif 2; other site 360106001067 motif 3; other site 360106001068 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 360106001069 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 360106001070 GDP-binding site [chemical binding]; other site 360106001071 ACT binding site; other site 360106001072 IMP binding site; other site 360106001073 Uncharacterized conserved protein [Function unknown]; Region: COG3334 360106001074 Protein of unknown function (DUF507); Region: DUF507; pfam04368 360106001075 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 360106001076 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 360106001077 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 360106001078 catalytic site [active] 360106001079 subunit interface [polypeptide binding]; other site 360106001080 Family description; Region: DsbD_2; pfam13386 360106001081 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 360106001082 PAS domain; Region: PAS_9; pfam13426 360106001083 putative active site [active] 360106001084 heme pocket [chemical binding]; other site 360106001085 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360106001086 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 360106001087 ATP binding site [chemical binding]; other site 360106001088 Mg2+ binding site [ion binding]; other site 360106001089 G-X-G motif; other site 360106001090 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360106001091 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360106001092 active site 360106001093 phosphorylation site [posttranslational modification] 360106001094 intermolecular recognition site; other site 360106001095 dimerization interface [polypeptide binding]; other site 360106001096 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 360106001097 DNA binding site [nucleotide binding] 360106001098 cbb3-type cytochrome c oxidase subunit I; Provisional; Region: PRK14488 360106001099 Low-spin heme binding site [chemical binding]; other site 360106001100 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 360106001101 D-pathway; other site 360106001102 Putative water exit pathway; other site 360106001103 Binuclear center (active site) [active] 360106001104 K-pathway; other site 360106001105 Putative proton exit pathway; other site 360106001106 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 360106001107 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 360106001108 cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial; Region: cbb3_Q_epsi; TIGR02736 360106001109 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 360106001110 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 360106001111 Cytochrome c; Region: Cytochrom_C; pfam00034 360106001112 Family of unknown function (DUF4006); Region: DUF4006; pfam13179 360106001113 FixH; Region: FixH; pfam05751 360106001114 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 360106001115 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 360106001116 putative recombination protein RecB; Provisional; Region: PRK13909 360106001117 Part of AAA domain; Region: AAA_19; pfam13245 360106001118 Family description; Region: UvrD_C_2; pfam13538 360106001119 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 360106001120 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 360106001121 23S rRNA interface [nucleotide binding]; other site 360106001122 L3 interface [polypeptide binding]; other site 360106001123 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 360106001124 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 360106001125 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 360106001126 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 360106001127 ligand binding site [chemical binding]; other site 360106001128 Mechanosensitive ion channel; Region: MS_channel; pfam00924 360106001129 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 360106001130 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 360106001131 motif II; other site 360106001132 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 360106001133 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 360106001134 dimer interface [polypeptide binding]; other site 360106001135 PYR/PP interface [polypeptide binding]; other site 360106001136 TPP binding site [chemical binding]; other site 360106001137 substrate binding site [chemical binding]; other site 360106001138 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 360106001139 Domain of unknown function; Region: EKR; smart00890 360106001140 4Fe-4S binding domain; Region: Fer4_6; pfam12837 360106001141 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 360106001142 TPP-binding site [chemical binding]; other site 360106001143 Campylobacter major outer membrane protein; Region: Campylo_MOMP; pfam05538 360106001144 Campylobacter major outer membrane protein; Region: Campylo_MOMP; pfam05538 360106001145 Cytochrome c; Region: Cytochrom_C; pfam00034 360106001146 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 360106001147 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 360106001148 putative ligand binding site [chemical binding]; other site 360106001149 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 360106001150 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 360106001151 TM-ABC transporter signature motif; other site 360106001152 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 360106001153 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 360106001154 TM-ABC transporter signature motif; other site 360106001155 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 360106001156 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 360106001157 Walker A/P-loop; other site 360106001158 ATP binding site [chemical binding]; other site 360106001159 Q-loop/lid; other site 360106001160 ABC transporter signature motif; other site 360106001161 Walker B; other site 360106001162 D-loop; other site 360106001163 H-loop/switch region; other site 360106001164 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 360106001165 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 360106001166 Walker A/P-loop; other site 360106001167 ATP binding site [chemical binding]; other site 360106001168 Q-loop/lid; other site 360106001169 ABC transporter signature motif; other site 360106001170 Walker B; other site 360106001171 D-loop; other site 360106001172 H-loop/switch region; other site 360106001173 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 360106001174 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 360106001175 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 360106001176 tetramer interfaces [polypeptide binding]; other site 360106001177 binuclear metal-binding site [ion binding]; other site 360106001178 ATP-sulfurylase; Region: ATP-sulfurylase; pfam01747 360106001179 Response regulator receiver domain; Region: Response_reg; pfam00072 360106001180 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360106001181 active site 360106001182 phosphorylation site [posttranslational modification] 360106001183 intermolecular recognition site; other site 360106001184 dimerization interface [polypeptide binding]; other site 360106001185 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 360106001186 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 360106001187 substrate binding site; other site 360106001188 dimer interface; other site 360106001189 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 360106001190 homotrimer interaction site [polypeptide binding]; other site 360106001191 zinc binding site [ion binding]; other site 360106001192 CDP-binding sites; other site 360106001193 ThiC family; Region: ThiC; pfam01964 360106001194 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 360106001195 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 360106001196 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 360106001197 Tetrahydrodipicolinate N-succinyltransferase [Amino acid transport and metabolism]; Region: DapD; COG2171 360106001198 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 360106001199 putative trimer interface [polypeptide binding]; other site 360106001200 putative CoA binding site [chemical binding]; other site 360106001201 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 360106001202 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360106001203 Walker A/P-loop; other site 360106001204 ATP binding site [chemical binding]; other site 360106001205 Q-loop/lid; other site 360106001206 ABC transporter signature motif; other site 360106001207 Walker B; other site 360106001208 D-loop; other site 360106001209 H-loop/switch region; other site 360106001210 ABC transporter; Region: ABC_tran_2; pfam12848 360106001211 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 360106001212 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 360106001213 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 360106001214 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 360106001215 L-aspartate oxidase; Provisional; Region: PRK06175 360106001216 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 360106001217 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13553 360106001218 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 360106001219 Iron-sulfur protein interface; other site 360106001220 proximal heme binding site [chemical binding]; other site 360106001221 distal heme binding site [chemical binding]; other site 360106001222 dimer interface [polypeptide binding]; other site 360106001223 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 360106001224 DNA polymerase IV; Validated; Region: PRK01810 360106001225 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 360106001226 active site 360106001227 DNA binding site [nucleotide binding] 360106001228 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 360106001229 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360106001230 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 360106001231 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 360106001232 Coenzyme A binding pocket [chemical binding]; other site 360106001233 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 360106001234 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 360106001235 hypothetical protein; Provisional; Region: PRK12378 360106001236 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 360106001237 active site 360106001238 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 360106001239 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 360106001240 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 360106001241 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 360106001242 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 360106001243 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 360106001244 ligand binding site [chemical binding]; other site 360106001245 flexible hinge region; other site 360106001246 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 360106001247 non-specific DNA interactions [nucleotide binding]; other site 360106001248 DNA binding site [nucleotide binding] 360106001249 sequence specific DNA binding site [nucleotide binding]; other site 360106001250 putative cAMP binding site [chemical binding]; other site 360106001251 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 360106001252 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 360106001253 molybdopterin cofactor binding site; other site 360106001254 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 360106001255 molybdopterin cofactor binding site; other site 360106001256 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 360106001257 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360106001258 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 360106001259 dimer interface [polypeptide binding]; other site 360106001260 phosphorylation site [posttranslational modification] 360106001261 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 360106001262 ATP binding site [chemical binding]; other site 360106001263 Mg2+ binding site [ion binding]; other site 360106001264 G-X-G motif; other site 360106001265 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360106001266 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360106001267 active site 360106001268 phosphorylation site [posttranslational modification] 360106001269 intermolecular recognition site; other site 360106001270 dimerization interface [polypeptide binding]; other site 360106001271 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 360106001272 DNA binding site [nucleotide binding] 360106001273 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 360106001274 catalytic residues [active] 360106001275 hinge region; other site 360106001276 alpha helical domain; other site 360106001277 putative disulfide oxidoreductase; Provisional; Region: PRK04307 360106001278 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 360106001279 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 360106001280 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 360106001281 Dynamin family; Region: Dynamin_N; pfam00350 360106001282 G1 box; other site 360106001283 GTP/Mg2+ binding site [chemical binding]; other site 360106001284 G2 box; other site 360106001285 Switch I region; other site 360106001286 G3 box; other site 360106001287 Switch II region; other site 360106001288 G4 box; other site 360106001289 G5 box; other site 360106001290 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 360106001291 Dynamin family; Region: Dynamin_N; pfam00350 360106001292 G1 box; other site 360106001293 GTP/Mg2+ binding site [chemical binding]; other site 360106001294 G2 box; other site 360106001295 Switch I region; other site 360106001296 G3 box; other site 360106001297 Switch II region; other site 360106001298 G4 box; other site 360106001299 G5 box; other site 360106001300 nitrous-oxide reductase, Sec-dependent; Region: nitrous_NosZ_Gp; TIGR04246 360106001301 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 360106001302 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 360106001303 Cytochrome c; Region: Cytochrom_C; pfam00034 360106001304 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 360106001305 4Fe-4S binding domain; Region: Fer4; cl02805 360106001306 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 360106001307 Cytochrome c; Region: Cytochrom_C; cl11414 360106001308 Cytochrome c; Region: Cytochrom_C; cl11414 360106001309 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 360106001310 4Fe-4S binding domain; Region: Fer4_5; pfam12801 360106001311 4Fe-4S binding domain; Region: Fer4_5; pfam12801 360106001312 4Fe-4S binding domain; Region: Fer4; cl02805 360106001313 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 360106001314 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 360106001315 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 360106001316 Walker A/P-loop; other site 360106001317 ATP binding site [chemical binding]; other site 360106001318 Q-loop/lid; other site 360106001319 ABC transporter signature motif; other site 360106001320 Walker B; other site 360106001321 D-loop; other site 360106001322 H-loop/switch region; other site 360106001323 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 360106001324 NosL; Region: NosL; cl01769 360106001325 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360106001326 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 360106001327 dimerization interface [polypeptide binding]; other site 360106001328 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 360106001329 dimer interface [polypeptide binding]; other site 360106001330 phosphorylation site [posttranslational modification] 360106001331 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 360106001332 ATP binding site [chemical binding]; other site 360106001333 Mg2+ binding site [ion binding]; other site 360106001334 G-X-G motif; other site 360106001335 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360106001336 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360106001337 active site 360106001338 phosphorylation site [posttranslational modification] 360106001339 intermolecular recognition site; other site 360106001340 dimerization interface [polypeptide binding]; other site 360106001341 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 360106001342 DNA binding site [nucleotide binding] 360106001343 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 360106001344 Dihaem cytochrome c; Region: DHC; pfam09626 360106001345 Dihaem cytochrome c; Region: DHC; pfam09626 360106001346 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 360106001347 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 360106001348 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 360106001349 HlyD family secretion protein; Region: HlyD_3; pfam13437 360106001350 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 360106001351 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 360106001352 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 360106001353 Walker A/P-loop; other site 360106001354 ATP binding site [chemical binding]; other site 360106001355 Q-loop/lid; other site 360106001356 ABC transporter signature motif; other site 360106001357 Walker B; other site 360106001358 D-loop; other site 360106001359 H-loop/switch region; other site 360106001360 SapC; Region: SapC; pfam07277 360106001361 AAA domain; Region: AAA_14; pfam13173 360106001362 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 360106001363 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 360106001364 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 360106001365 oligomerization interface [polypeptide binding]; other site 360106001366 active site 360106001367 metal binding site [ion binding]; metal-binding site 360106001368 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 360106001369 active site residue [active] 360106001370 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 360106001371 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 360106001372 Walker A motif; other site 360106001373 ATP binding site [chemical binding]; other site 360106001374 Walker B motif; other site 360106001375 arginine finger; other site 360106001376 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 360106001377 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 360106001378 Domain of unknown function DUF20; Region: UPF0118; pfam01594 360106001379 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 360106001380 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360106001381 Walker A/P-loop; other site 360106001382 ATP binding site [chemical binding]; other site 360106001383 Q-loop/lid; other site 360106001384 ABC transporter signature motif; other site 360106001385 Walker B; other site 360106001386 D-loop; other site 360106001387 H-loop/switch region; other site 360106001388 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 360106001389 mce related protein; Region: MCE; pfam02470 360106001390 Protein of unknown function (DUF330); Region: DUF330; cl01135 360106001391 metal-binding heat shock protein; Provisional; Region: PRK00016 360106001392 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 360106001393 HipA N-terminal domain; Region: Couple_hipA; pfam13657 360106001394 HipA-like N-terminal domain; Region: HipA_N; pfam07805 360106001395 HipA-like C-terminal domain; Region: HipA_C; pfam07804 360106001396 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1672 360106001397 AAA ATPase domain; Region: AAA_16; pfam13191 360106001398 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 360106001399 putative DNA binding site [nucleotide binding]; other site 360106001400 putative Zn2+ binding site [ion binding]; other site 360106001401 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 360106001402 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360106001403 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 360106001404 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 360106001405 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 360106001406 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360106001407 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 360106001408 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 360106001409 Walker A/P-loop; other site 360106001410 ATP binding site [chemical binding]; other site 360106001411 Q-loop/lid; other site 360106001412 ABC transporter signature motif; other site 360106001413 Walker B; other site 360106001414 D-loop; other site 360106001415 H-loop/switch region; other site 360106001416 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 360106001417 putative carbohydrate binding site [chemical binding]; other site 360106001418 ABC-2 type transporter; Region: ABC2_membrane; cl17235 360106001419 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 360106001420 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360106001421 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 360106001422 putative ADP-binding pocket [chemical binding]; other site 360106001423 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 360106001424 Bacterial sugar transferase; Region: Bac_transf; pfam02397 360106001425 DNA repair protein RadA; Provisional; Region: PRK11823 360106001426 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 360106001427 Walker A motif/ATP binding site; other site 360106001428 ATP binding site [chemical binding]; other site 360106001429 Walker B motif; other site 360106001430 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 360106001431 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 360106001432 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 360106001433 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 360106001434 P loop; other site 360106001435 GTP binding site [chemical binding]; other site 360106001436 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 360106001437 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 360106001438 catalytic residues [active] 360106001439 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 360106001440 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 360106001441 phosphodiesterase; Provisional; Region: PRK12704 360106001442 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl17245 360106001443 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 360106001444 Zn2+ binding site [ion binding]; other site 360106001445 Mg2+ binding site [ion binding]; other site 360106001446 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 360106001447 putative amphipathic alpha helix; other site 360106001448 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 360106001449 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 360106001450 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 360106001451 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 360106001452 Helix-hairpin-helix motif; Region: HHH; pfam00633 360106001453 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 360106001454 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360106001455 dimer interface [polypeptide binding]; other site 360106001456 putative CheW interface [polypeptide binding]; other site 360106001457 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 360106001458 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 360106001459 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 360106001460 inhibitor-cofactor binding pocket; inhibition site 360106001461 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360106001462 catalytic residue [active] 360106001463 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 360106001464 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 360106001465 minor groove reading motif; other site 360106001466 helix-hairpin-helix signature motif; other site 360106001467 substrate binding pocket [chemical binding]; other site 360106001468 active site 360106001469 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 360106001470 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 360106001471 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 360106001472 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 360106001473 active site 360106001474 intersubunit interface [polypeptide binding]; other site 360106001475 zinc binding site [ion binding]; other site 360106001476 Na+ binding site [ion binding]; other site 360106001477 Cdc37 N terminal kinase binding; Region: CDC37_N; cl03951 360106001478 hypothetical protein; Validated; Region: PRK09039 360106001479 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 360106001480 ligand binding site [chemical binding]; other site 360106001481 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 360106001482 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 360106001483 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360106001484 catalytic residue [active] 360106001485 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 360106001486 histidinol dehydrogenase; Region: hisD; TIGR00069 360106001487 NAD binding site [chemical binding]; other site 360106001488 dimerization interface [polypeptide binding]; other site 360106001489 product binding site; other site 360106001490 substrate binding site [chemical binding]; other site 360106001491 zinc binding site [ion binding]; other site 360106001492 catalytic residues [active] 360106001493 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 360106001494 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 360106001495 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 360106001496 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 360106001497 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 360106001498 DNA binding residues [nucleotide binding] 360106001499 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 360106001500 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 360106001501 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 360106001502 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 360106001503 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 360106001504 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 360106001505 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 360106001506 Predicted membrane protein [Function unknown]; Region: COG4280 360106001507 Fe2+ transport protein; Region: Iron_transport; pfam10634 360106001508 Predicted membrane protein [Function unknown]; Region: COG4393 360106001509 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 360106001510 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 360106001511 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 360106001512 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 360106001513 FtsX-like permease family; Region: FtsX; pfam02687 360106001514 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 360106001515 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 360106001516 FtsX-like permease family; Region: FtsX; pfam02687 360106001517 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 360106001518 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 360106001519 Walker A/P-loop; other site 360106001520 ATP binding site [chemical binding]; other site 360106001521 Q-loop/lid; other site 360106001522 ABC transporter signature motif; other site 360106001523 Walker B; other site 360106001524 D-loop; other site 360106001525 H-loop/switch region; other site 360106001526 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 360106001527 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 360106001528 catalytic residues [active] 360106001529 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 360106001530 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 360106001531 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 360106001532 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 360106001533 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 360106001534 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 360106001535 putative active site; other site 360106001536 catalytic triad [active] 360106001537 putative dimer interface [polypeptide binding]; other site 360106001538 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 360106001539 Protein of unknown function DUF45; Region: DUF45; pfam01863 360106001540 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 360106001541 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 360106001542 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360106001543 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 360106001544 dimer interface [polypeptide binding]; other site 360106001545 phosphorylation site [posttranslational modification] 360106001546 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 360106001547 ATP binding site [chemical binding]; other site 360106001548 Mg2+ binding site [ion binding]; other site 360106001549 G-X-G motif; other site 360106001550 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360106001551 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360106001552 active site 360106001553 phosphorylation site [posttranslational modification] 360106001554 intermolecular recognition site; other site 360106001555 dimerization interface [polypeptide binding]; other site 360106001556 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 360106001557 DNA binding site [nucleotide binding] 360106001558 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 360106001559 metabolite-proton symporter; Region: 2A0106; TIGR00883 360106001560 putative substrate translocation pore; other site 360106001561 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 360106001562 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 360106001563 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 360106001564 ABC transporter; Region: ABC_tran_2; pfam12848 360106001565 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 360106001566 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 360106001567 Na2 binding site [ion binding]; other site 360106001568 putative substrate binding site 1 [chemical binding]; other site 360106001569 Na binding site 1 [ion binding]; other site 360106001570 putative substrate binding site 2 [chemical binding]; other site 360106001571 Peptidase family M48; Region: Peptidase_M48; pfam01435 360106001572 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 360106001573 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 360106001574 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 360106001575 DDE superfamily endonuclease; Region: DDE_5; cl17874 360106001576 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_2; cd10034 360106001577 putative uracil binding site [chemical binding]; other site 360106001578 putative active site [active] 360106001579 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360106001580 Coenzyme A binding pocket [chemical binding]; other site 360106001581 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 360106001582 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 360106001583 Nitrogen regulatory protein P-II; Region: P-II; smart00938 360106001584 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 360106001585 Ribonuclease P; Region: Ribonuclease_P; pfam00825 360106001586 membrane protein insertase; Provisional; Region: PRK01318 360106001587 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 360106001588 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 360106001589 KH domain; Region: KH_4; pfam13083 360106001590 G-X-X-G motif; other site 360106001591 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 360106001592 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 360106001593 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 360106001594 GTP/Mg2+ binding site [chemical binding]; other site 360106001595 G4 box; other site 360106001596 trmE is a tRNA modification GTPase; Region: trmE; cd04164 360106001597 G1 box; other site 360106001598 G1 box; other site 360106001599 GTP/Mg2+ binding site [chemical binding]; other site 360106001600 Switch I region; other site 360106001601 Switch I region; other site 360106001602 G2 box; other site 360106001603 G2 box; other site 360106001604 Switch II region; other site 360106001605 G3 box; other site 360106001606 G3 box; other site 360106001607 Switch II region; other site 360106001608 G4 box; other site 360106001609 G5 box; other site 360106001610 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 360106001611 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 360106001612 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 360106001613 dimerization interface [polypeptide binding]; other site 360106001614 ATP binding site [chemical binding]; other site 360106001615 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 360106001616 dimerization interface [polypeptide binding]; other site 360106001617 ATP binding site [chemical binding]; other site 360106001618 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 360106001619 putative metal binding site [ion binding]; other site 360106001620 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 360106001621 HSP70 interaction site [polypeptide binding]; other site 360106001622 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 360106001623 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 360106001624 purine monophosphate binding site [chemical binding]; other site 360106001625 dimer interface [polypeptide binding]; other site 360106001626 putative catalytic residues [active] 360106001627 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 360106001628 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 360106001629 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 360106001630 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 360106001631 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 360106001632 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 360106001633 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360106001634 dimer interface [polypeptide binding]; other site 360106001635 putative CheW interface [polypeptide binding]; other site 360106001636 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 360106001637 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 360106001638 homodimer interface [polypeptide binding]; other site 360106001639 substrate-cofactor binding pocket; other site 360106001640 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360106001641 catalytic residue [active] 360106001642 Predicted membrane protein [Function unknown]; Region: COG1289 360106001643 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 360106001644 MraW methylase family; Region: Methyltransf_5; cl17771 360106001645 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 360106001646 hypothetical protein; Provisional; Region: PRK05834 360106001647 SurA N-terminal domain; Region: SurA_N_3; cl07813 360106001648 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 360106001649 cell division protein FtsA; Region: ftsA; TIGR01174 360106001650 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 360106001651 nucleotide binding site [chemical binding]; other site 360106001652 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 360106001653 Cell division protein FtsA; Region: FtsA; pfam14450 360106001654 cell division protein FtsZ; Validated; Region: PRK09330 360106001655 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 360106001656 nucleotide binding site [chemical binding]; other site 360106001657 SulA interaction site; other site 360106001658 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 360106001659 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 360106001660 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 360106001661 NlpC/P60 family; Region: NLPC_P60; cl17555 360106001662 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 360106001663 PIF1-like helicase; Region: PIF1; pfam05970 360106001664 AAA domain; Region: AAA_30; pfam13604 360106001665 Family description; Region: UvrD_C_2; pfam13538 360106001666 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 360106001667 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 360106001668 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 360106001669 DEAD/DEAH box helicase; Region: DEAD; pfam00270 360106001670 ATP binding site [chemical binding]; other site 360106001671 putative Mg++ binding site [ion binding]; other site 360106001672 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 360106001673 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 360106001674 nucleotide binding region [chemical binding]; other site 360106001675 ATP-binding site [chemical binding]; other site 360106001676 SEC-C motif; Region: SEC-C; pfam02810 360106001677 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 360106001678 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 360106001679 FtsX-like permease family; Region: FtsX; pfam02687 360106001680 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 360106001681 Major Facilitator Superfamily; Region: MFS_1; pfam07690 360106001682 putative substrate translocation pore; other site 360106001683 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360106001684 active site 360106001685 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 360106001686 hypothetical protein; Provisional; Region: PRK08444 360106001687 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 360106001688 FeS/SAM binding site; other site 360106001689 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 360106001690 PII uridylyl-transferase; Provisional; Region: glnD; PRK01759 360106001691 metal binding triad; other site 360106001692 ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; Region: ACT_UUR-ACR-like; cd04873 360106001693 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 360106001694 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 360106001695 glutaminase active site [active] 360106001696 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 360106001697 dimer interface [polypeptide binding]; other site 360106001698 active site 360106001699 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 360106001700 dimer interface [polypeptide binding]; other site 360106001701 active site 360106001702 putative inner membrane protein; Provisional; Region: PRK11099 360106001703 hypothetical protein; Provisional; Region: PRK11018 360106001704 CPxP motif; other site 360106001705 glutamate racemase; Provisional; Region: PRK00865 360106001706 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 360106001707 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 360106001708 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 360106001709 Helix-hairpin-helix motif; Region: HHH; pfam00633 360106001710 Hemerythrin; Region: Hemerythrin; cd12107 360106001711 Fe binding site [ion binding]; other site 360106001712 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360106001713 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360106001714 metal binding site [ion binding]; metal-binding site 360106001715 active site 360106001716 I-site; other site 360106001717 Competence-damaged protein; Region: CinA; pfam02464 360106001718 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 360106001719 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360106001720 active site 360106001721 HIGH motif; other site 360106001722 nucleotide binding site [chemical binding]; other site 360106001723 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 360106001724 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 360106001725 active site 360106001726 KMSKS motif; other site 360106001727 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 360106001728 tRNA binding surface [nucleotide binding]; other site 360106001729 anticodon binding site; other site 360106001730 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 360106001731 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 360106001732 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 360106001733 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 360106001734 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 360106001735 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 360106001736 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 360106001737 active site 360106001738 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 360106001739 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 360106001740 Predicted amidohydrolase [General function prediction only]; Region: COG0388 360106001741 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 360106001742 active site 360106001743 catalytic triad [active] 360106001744 dimer interface [polypeptide binding]; other site 360106001745 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 360106001746 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 360106001747 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360106001748 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 360106001749 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 360106001750 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 360106001751 phosphate binding site [ion binding]; other site 360106001752 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 360106001753 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 360106001754 Walker A/P-loop; other site 360106001755 ATP binding site [chemical binding]; other site 360106001756 Q-loop/lid; other site 360106001757 ABC transporter signature motif; other site 360106001758 Walker B; other site 360106001759 D-loop; other site 360106001760 H-loop/switch region; other site 360106001761 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 360106001762 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 360106001763 dimer interface [polypeptide binding]; other site 360106001764 conserved gate region; other site 360106001765 putative PBP binding loops; other site 360106001766 ABC-ATPase subunit interface; other site 360106001767 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 360106001768 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 360106001769 substrate binding pocket [chemical binding]; other site 360106001770 membrane-bound complex binding site; other site 360106001771 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 360106001772 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 360106001773 OsmC-like protein; Region: OsmC; pfam02566 360106001774 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 360106001775 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360106001776 Walker A/P-loop; other site 360106001777 ATP binding site [chemical binding]; other site 360106001778 Q-loop/lid; other site 360106001779 ABC transporter signature motif; other site 360106001780 Walker B; other site 360106001781 D-loop; other site 360106001782 H-loop/switch region; other site 360106001783 Smr domain; Region: Smr; pfam01713 360106001784 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360106001785 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360106001786 metal binding site [ion binding]; metal-binding site 360106001787 active site 360106001788 I-site; other site 360106001789 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 360106001790 LysE type translocator; Region: LysE; cl00565 360106001791 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 360106001792 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 360106001793 metal binding site [ion binding]; metal-binding site 360106001794 dimer interface [polypeptide binding]; other site 360106001795 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 360106001796 Predicted dehydrogenase [General function prediction only]; Region: COG0579 360106001797 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 360106001798 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 360106001799 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 360106001800 S-adenosylmethionine binding site [chemical binding]; other site 360106001801 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 360106001802 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 360106001803 domain interfaces; other site 360106001804 active site 360106001805 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 360106001806 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 360106001807 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 360106001808 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 360106001809 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 360106001810 ssDNA binding site; other site 360106001811 generic binding surface II; other site 360106001812 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 360106001813 ATP binding site [chemical binding]; other site 360106001814 putative Mg++ binding site [ion binding]; other site 360106001815 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 360106001816 nucleotide binding region [chemical binding]; other site 360106001817 ATP-binding site [chemical binding]; other site 360106001818 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 360106001819 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 360106001820 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 360106001821 putative catalytic cysteine [active] 360106001822 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 360106001823 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 360106001824 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360106001825 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 360106001826 phosphodiesterase; Provisional; Region: PRK12704 360106001827 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 360106001828 Methyltransferase domain; Region: Methyltransf_26; pfam13659 360106001829 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 360106001830 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 360106001831 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 360106001832 active site 360106001833 ribulose/triose binding site [chemical binding]; other site 360106001834 phosphate binding site [ion binding]; other site 360106001835 substrate (anthranilate) binding pocket [chemical binding]; other site 360106001836 product (indole) binding pocket [chemical binding]; other site 360106001837 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 360106001838 nucleotide binding site/active site [active] 360106001839 HIT family signature motif; other site 360106001840 catalytic residue [active] 360106001841 Protein of unknown function (DUF328); Region: DUF328; pfam03883 360106001842 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 360106001843 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 360106001844 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 360106001845 Helix-turn-helix domain; Region: HTH_28; pfam13518 360106001846 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 360106001847 Terminase-like family; Region: Terminase_6; pfam03237 360106001848 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 360106001849 Phage-related protein [Function unknown]; Region: COG4695; cl01923 360106001850 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 360106001851 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 360106001852 CRISPR-associated protein Cas5, subtype I-B/HMARI; Region: cas_Cas5h; TIGR02592 360106001853 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 360106001854 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 360106001855 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 360106001856 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 360106001857 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 360106001858 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 360106001859 Domain of unknown function (DUF336); Region: DUF336; cl01249 360106001860 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 360106001861 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 360106001862 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 360106001863 acetyl-CoA carboxylase subunit A; Validated; Region: PRK08463 360106001864 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 360106001865 ATP-grasp domain; Region: ATP-grasp_4; cl17255 360106001866 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 360106001867 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 360106001868 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 360106001869 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 360106001870 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 360106001871 HSP70 interaction site [polypeptide binding]; other site 360106001872 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 360106001873 active site 360106001874 hydrophilic channel; other site 360106001875 dimerization interface [polypeptide binding]; other site 360106001876 catalytic residues [active] 360106001877 active site lid [active] 360106001878 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 360106001879 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK03946 360106001880 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 360106001881 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 360106001882 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08412 360106001883 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 360106001884 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 360106001885 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 360106001886 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 360106001887 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 360106001888 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 360106001889 Domain of unknown function (DUF2018); Region: DUF2018; pfam09442 360106001890 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 360106001891 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 360106001892 substrate binding pocket [chemical binding]; other site 360106001893 chain length determination region; other site 360106001894 substrate-Mg2+ binding site; other site 360106001895 catalytic residues [active] 360106001896 aspartate-rich region 1; other site 360106001897 active site lid residues [active] 360106001898 aspartate-rich region 2; other site 360106001899 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 360106001900 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 360106001901 tRNA; other site 360106001902 putative tRNA binding site [nucleotide binding]; other site 360106001903 putative NADP binding site [chemical binding]; other site 360106001904 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 360106001905 prolyl-tRNA synthetase; Provisional; Region: PRK09194 360106001906 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 360106001907 dimer interface [polypeptide binding]; other site 360106001908 motif 1; other site 360106001909 active site 360106001910 motif 2; other site 360106001911 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 360106001912 putative deacylase active site [active] 360106001913 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 360106001914 active site 360106001915 motif 3; other site 360106001916 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 360106001917 anticodon binding site; other site 360106001918 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 360106001919 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; cl17708 360106001920 domain interfaces; other site 360106001921 active site 360106001922 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 360106001923 FAD binding domain; Region: FAD_binding_4; pfam01565 360106001924 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 360106001925 putative peptidase; Provisional; Region: PRK11649 360106001926 Peptidase family M23; Region: Peptidase_M23; pfam01551 360106001927 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 360106001928 MgtE intracellular N domain; Region: MgtE_N; smart00924 360106001929 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 360106001930 Divalent cation transporter; Region: MgtE; pfam01769 360106001931 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 360106001932 dimer interface [polypeptide binding]; other site 360106001933 ADP-ribose binding site [chemical binding]; other site 360106001934 active site 360106001935 nudix motif; other site 360106001936 metal binding site [ion binding]; metal-binding site 360106001937 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 360106001938 oligomerisation interface [polypeptide binding]; other site 360106001939 mobile loop; other site 360106001940 roof hairpin; other site 360106001941 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 360106001942 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 360106001943 ring oligomerisation interface [polypeptide binding]; other site 360106001944 ATP/Mg binding site [chemical binding]; other site 360106001945 stacking interactions; other site 360106001946 hinge regions; other site 360106001947 ferrochelatase; Reviewed; Region: hemH; PRK00035 360106001948 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 360106001949 C-terminal domain interface [polypeptide binding]; other site 360106001950 active site 360106001951 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 360106001952 active site 360106001953 N-terminal domain interface [polypeptide binding]; other site 360106001954 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 360106001955 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 360106001956 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 360106001957 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK03907 360106001958 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 360106001959 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 360106001960 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 360106001961 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 360106001962 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 360106001963 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 360106001964 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 360106001965 Clp amino terminal domain; Region: Clp_N; pfam02861 360106001966 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 360106001967 Walker A motif; other site 360106001968 ATP binding site [chemical binding]; other site 360106001969 Walker B motif; other site 360106001970 arginine finger; other site 360106001971 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 360106001972 Walker A motif; other site 360106001973 ATP binding site [chemical binding]; other site 360106001974 Walker B motif; other site 360106001975 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 360106001976 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; pfam02617 360106001977 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 360106001978 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 360106001979 SmpB-tmRNA interface; other site 360106001980 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK04181 360106001981 Global regulator protein family; Region: CsrA; pfam02599 360106001982 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK04099 360106001983 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 360106001984 RNA binding site [nucleotide binding]; other site 360106001985 active site 360106001986 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 360106001987 Part of AAA domain; Region: AAA_19; pfam13245 360106001988 Family description; Region: UvrD_C_2; pfam13538 360106001989 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 360106001990 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360106001991 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360106001992 LysR substrate binding domain; Region: LysR_substrate; pfam03466 360106001993 dimerization interface [polypeptide binding]; other site 360106001994 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 360106001995 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 360106001996 active site 360106001997 Zn binding site [ion binding]; other site 360106001998 serine/threonine transporter SstT; Provisional; Region: PRK13628 360106001999 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 360106002000 S-adenosylmethionine synthetase; Validated; Region: PRK05250 360106002001 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 360106002002 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 360106002003 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 360106002004 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 360106002005 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 360106002006 metal binding site [ion binding]; metal-binding site 360106002007 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 360106002008 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 360106002009 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 360106002010 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 360106002011 ABC-ATPase subunit interface; other site 360106002012 dimer interface [polypeptide binding]; other site 360106002013 putative PBP binding regions; other site 360106002014 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 360106002015 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 360106002016 ABC-ATPase subunit interface; other site 360106002017 dimer interface [polypeptide binding]; other site 360106002018 putative PBP binding regions; other site 360106002019 apolipoprotein N-acyltransferase; Reviewed; Region: PRK12291 360106002020 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 360106002021 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 360106002022 active site 360106002023 catalytic triad [active] 360106002024 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 360106002025 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 360106002026 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 360106002027 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 360106002028 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 360106002029 Protein export membrane protein; Region: SecD_SecF; pfam02355 360106002030 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 360106002031 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 360106002032 HIGH motif; other site 360106002033 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 360106002034 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 360106002035 active site 360106002036 KMSKS motif; other site 360106002037 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 360106002038 tRNA binding surface [nucleotide binding]; other site 360106002039 Lipopolysaccharide-assembly; Region: LptE; pfam04390 360106002040 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360106002041 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360106002042 metal binding site [ion binding]; metal-binding site 360106002043 active site 360106002044 I-site; other site 360106002045 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 360106002046 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 360106002047 Haemolysin E (HlyE); Region: HlyE; cl11627 360106002048 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 360106002049 Peptidase family M23; Region: Peptidase_M23; pfam01551 360106002050 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 360106002051 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 360106002052 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 360106002053 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 360106002054 ATP binding site [chemical binding]; other site 360106002055 putative Mg++ binding site [ion binding]; other site 360106002056 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 360106002057 nucleotide binding region [chemical binding]; other site 360106002058 ATP-binding site [chemical binding]; other site 360106002059 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 360106002060 SprA-related family; Region: SprA-related; pfam12118 360106002061 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 360106002062 Walker A motif; other site 360106002063 ATP binding site [chemical binding]; other site 360106002064 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 360106002065 endonuclease III; Region: ENDO3c; smart00478 360106002066 minor groove reading motif; other site 360106002067 helix-hairpin-helix signature motif; other site 360106002068 active site 360106002069 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 360106002070 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 360106002071 threonine dehydratase; Provisional; Region: PRK08526 360106002072 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 360106002073 tetramer interface [polypeptide binding]; other site 360106002074 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360106002075 catalytic residue [active] 360106002076 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 360106002077 haemagglutination activity domain; Region: Haemagg_act; pfam05860 360106002078 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 360106002079 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 360106002080 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 360106002081 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 360106002082 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 360106002083 dimerization interface 3.5A [polypeptide binding]; other site 360106002084 active site 360106002085 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 360106002086 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 360106002087 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 360106002088 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 360106002089 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 360106002090 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 360106002091 catalytic residue [active] 360106002092 putative FPP diphosphate binding site; other site 360106002093 putative FPP binding hydrophobic cleft; other site 360106002094 dimer interface [polypeptide binding]; other site 360106002095 putative IPP diphosphate binding site; other site 360106002096 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 360106002097 Flavoprotein; Region: Flavoprotein; pfam02441 360106002098 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 360106002099 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14359 360106002100 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 360106002101 Substrate binding site; other site 360106002102 Mg++ binding site; other site 360106002103 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 360106002104 active site 360106002105 substrate binding site [chemical binding]; other site 360106002106 CoA binding site [chemical binding]; other site 360106002107 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 360106002108 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 360106002109 Predicted permeases [General function prediction only]; Region: COG0679 360106002110 quinolinate synthetase; Provisional; Region: PRK09375 360106002111 macrolide transporter subunit MacA; Provisional; Region: PRK11578 360106002112 HlyD family secretion protein; Region: HlyD_3; pfam13437 360106002113 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 360106002114 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 360106002115 Walker A/P-loop; other site 360106002116 ATP binding site [chemical binding]; other site 360106002117 Q-loop/lid; other site 360106002118 ABC transporter signature motif; other site 360106002119 Walker B; other site 360106002120 D-loop; other site 360106002121 H-loop/switch region; other site 360106002122 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 360106002123 FtsX-like permease family; Region: FtsX; pfam02687 360106002124 multidrug resistance outer membrane protein MdtQ; Provisional; Region: PRK11459 360106002125 Competence protein; Region: Competence; pfam03772 360106002126 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360106002127 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 360106002128 dimer interface [polypeptide binding]; other site 360106002129 phosphorylation site [posttranslational modification] 360106002130 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 360106002131 Mg2+ binding site [ion binding]; other site 360106002132 G-X-G motif; other site 360106002133 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360106002134 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360106002135 active site 360106002136 phosphorylation site [posttranslational modification] 360106002137 intermolecular recognition site; other site 360106002138 dimerization interface [polypeptide binding]; other site 360106002139 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 360106002140 DNA binding site [nucleotide binding] 360106002141 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 360106002142 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 360106002143 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 360106002144 protein binding site [polypeptide binding]; other site 360106002145 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 360106002146 protein binding site [polypeptide binding]; other site 360106002147 chaperone protein DnaJ; Provisional; Region: PRK14299 360106002148 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 360106002149 HSP70 interaction site [polypeptide binding]; other site 360106002150 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 360106002151 substrate binding site [polypeptide binding]; other site 360106002152 dimer interface [polypeptide binding]; other site 360106002153 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 360106002154 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 360106002155 DNA binding residues [nucleotide binding] 360106002156 putative dimer interface [polypeptide binding]; other site 360106002157 putative cation:proton antiport protein; Provisional; Region: PRK10669 360106002158 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 360106002159 TrkA-N domain; Region: TrkA_N; pfam02254 360106002160 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 360106002161 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 360106002162 TrkA-C domain; Region: TrkA_C; pfam02080 360106002163 YceI-like domain; Region: YceI; cl01001 360106002164 hypothetical protein; Provisional; Region: PRK10621 360106002165 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 360106002166 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 360106002167 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 360106002168 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 360106002169 thiamine phosphate binding site [chemical binding]; other site 360106002170 active site 360106002171 pyrophosphate binding site [ion binding]; other site 360106002172 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 360106002173 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 360106002174 GatB domain; Region: GatB_Yqey; smart00845 360106002175 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 360106002176 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 360106002177 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 360106002178 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 360106002179 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 360106002180 Predicted permeases [General function prediction only]; Region: RarD; COG2962 360106002181 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 360106002182 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360106002183 Walker A/P-loop; other site 360106002184 ATP binding site [chemical binding]; other site 360106002185 Q-loop/lid; other site 360106002186 ABC transporter signature motif; other site 360106002187 Walker B; other site 360106002188 D-loop; other site 360106002189 H-loop/switch region; other site 360106002190 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 360106002191 dimer interface [polypeptide binding]; other site 360106002192 conserved gate region; other site 360106002193 putative PBP binding loops; other site 360106002194 ABC-ATPase subunit interface; other site 360106002195 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 360106002196 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 360106002197 substrate binding pocket [chemical binding]; other site 360106002198 membrane-bound complex binding site; other site 360106002199 hinge residues; other site 360106002200 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 360106002201 7-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK08416 360106002202 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 360106002203 putative NAD(P) binding site [chemical binding]; other site 360106002204 active site 360106002205 dihydrodipicolinate synthase; Region: dapA; TIGR00674 360106002206 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 360106002207 dimer interface [polypeptide binding]; other site 360106002208 active site 360106002209 catalytic residue [active] 360106002210 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 360106002211 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 360106002212 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 360106002213 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 360106002214 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 360106002215 quinone interaction residues [chemical binding]; other site 360106002216 active site 360106002217 catalytic residues [active] 360106002218 FMN binding site [chemical binding]; other site 360106002219 substrate binding site [chemical binding]; other site 360106002220 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 360106002221 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 360106002222 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360106002223 Walker A/P-loop; other site 360106002224 ATP binding site [chemical binding]; other site 360106002225 Q-loop/lid; other site 360106002226 ABC transporter signature motif; other site 360106002227 Walker B; other site 360106002228 D-loop; other site 360106002229 H-loop/switch region; other site 360106002230 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 360106002231 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 360106002232 active site 360106002233 HIGH motif; other site 360106002234 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 360106002235 KMSKS motif; other site 360106002236 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 360106002237 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 360106002238 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 360106002239 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 360106002240 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 360106002241 ATP binding site [chemical binding]; other site 360106002242 Mg++ binding site [ion binding]; other site 360106002243 motif III; other site 360106002244 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 360106002245 nucleotide binding region [chemical binding]; other site 360106002246 ATP-binding site [chemical binding]; other site 360106002247 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 360106002248 fructose-1,6-bisphosphatase; Provisional; Region: PRK09293 360106002249 active site 360106002250 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 360106002251 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 360106002252 active site 360106002253 HIGH motif; other site 360106002254 KMSKS motif; other site 360106002255 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 360106002256 tRNA binding surface [nucleotide binding]; other site 360106002257 anticodon binding site; other site 360106002258 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 360106002259 dimer interface [polypeptide binding]; other site 360106002260 putative tRNA-binding site [nucleotide binding]; other site 360106002261 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 360106002262 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 360106002263 ligand binding site [chemical binding]; other site 360106002264 flexible hinge region; other site 360106002265 non-specific DNA interactions [nucleotide binding]; other site 360106002266 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 360106002267 DNA binding site [nucleotide binding] 360106002268 sequence specific DNA binding site [nucleotide binding]; other site 360106002269 putative cAMP binding site [chemical binding]; other site 360106002270 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 360106002271 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 360106002272 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 360106002273 hypothetical protein; Provisional; Region: PRK08445 360106002274 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 360106002275 FeS/SAM binding site; other site 360106002276 NlpE N-terminal domain; Region: NlpE; pfam04170 360106002277 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 360106002278 Major Facilitator Superfamily; Region: MFS_1; pfam07690 360106002279 putative substrate translocation pore; other site 360106002280 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 360106002281 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 360106002282 CheB methylesterase; Region: CheB_methylest; pfam01339 360106002283 Protein of unknown function (DUF342); Region: DUF342; pfam03961 360106002284 Holliday junction DNA helicase RuvA; Provisional; Region: ruvA; PRK14601 360106002285 RuvA N terminal domain; Region: RuvA_N; pfam01330 360106002286 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 360106002287 DNA binding site [nucleotide binding] 360106002288 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 360106002289 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 360106002290 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 360106002291 ATP-grasp domain; Region: ATP-grasp_4; cl17255 360106002292 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 360106002293 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 360106002294 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 360106002295 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360106002296 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 360106002297 propionate/acetate kinase; Provisional; Region: PRK12379 360106002298 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 360106002299 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 360106002300 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 360106002301 Domain of unknown function (DUF305); Region: DUF305; pfam03713 360106002302 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK08527 360106002303 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 360106002304 PYR/PP interface [polypeptide binding]; other site 360106002305 dimer interface [polypeptide binding]; other site 360106002306 TPP binding site [chemical binding]; other site 360106002307 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 360106002308 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 360106002309 TPP-binding site [chemical binding]; other site 360106002310 dimer interface [polypeptide binding]; other site 360106002311 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 360106002312 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 360106002313 putative valine binding site [chemical binding]; other site 360106002314 dimer interface [polypeptide binding]; other site 360106002315 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 360106002316 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 360106002317 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 360106002318 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 360106002319 trimer interface [polypeptide binding]; other site 360106002320 active site 360106002321 UDP-GlcNAc binding site [chemical binding]; other site 360106002322 lipid binding site [chemical binding]; lipid-binding site 360106002323 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 360106002324 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 360106002325 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 360106002326 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 360106002327 dimerization interface [polypeptide binding]; other site 360106002328 active site 360106002329 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 360106002330 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 360106002331 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 360106002332 putative active site [active] 360106002333 putative substrate binding site [chemical binding]; other site 360106002334 putative cosubstrate binding site; other site 360106002335 catalytic site [active] 360106002336 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 360106002337 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 360106002338 putative catalytic site [active] 360106002339 putative metal binding site [ion binding]; other site 360106002340 putative phosphate binding site [ion binding]; other site 360106002341 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 360106002342 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 360106002343 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 360106002344 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 360106002345 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 360106002346 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 360106002347 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 360106002348 Soluble P-type ATPase [General function prediction only]; Region: COG4087 360106002349 YtxH-like protein; Region: YtxH; cl02079 360106002350 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 360106002351 Peptidase family M23; Region: Peptidase_M23; pfam01551 360106002352 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360106002353 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360106002354 active site 360106002355 phosphorylation site [posttranslational modification] 360106002356 intermolecular recognition site; other site 360106002357 dimerization interface [polypeptide binding]; other site 360106002358 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 360106002359 DNA binding site [nucleotide binding] 360106002360 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360106002361 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 360106002362 dimer interface [polypeptide binding]; other site 360106002363 phosphorylation site [posttranslational modification] 360106002364 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 360106002365 ATP binding site [chemical binding]; other site 360106002366 Mg2+ binding site [ion binding]; other site 360106002367 G-X-G motif; other site 360106002368 argininosuccinate synthase; Provisional; Region: PRK13820 360106002369 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 360106002370 ANP binding site [chemical binding]; other site 360106002371 Substrate Binding Site II [chemical binding]; other site 360106002372 Substrate Binding Site I [chemical binding]; other site 360106002373 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 360106002374 active site 360106002375 DNA binding site [nucleotide binding] 360106002376 Int/Topo IB signature motif; other site 360106002377 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 360106002378 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 360106002379 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 360106002380 active site 360106002381 homodimer interface [polypeptide binding]; other site 360106002382 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cl00257 360106002383 IHF - DNA interface [nucleotide binding]; other site 360106002384 IHF dimer interface [polypeptide binding]; other site 360106002385 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 360106002386 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 360106002387 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 360106002388 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 360106002389 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 360106002390 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 360106002391 RNA binding surface [nucleotide binding]; other site 360106002392 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 360106002393 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 360106002394 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 360106002395 Walker A/P-loop; other site 360106002396 ATP binding site [chemical binding]; other site 360106002397 Q-loop/lid; other site 360106002398 ABC transporter signature motif; other site 360106002399 Walker B; other site 360106002400 D-loop; other site 360106002401 H-loop/switch region; other site 360106002402 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 360106002403 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 360106002404 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 360106002405 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 360106002406 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 360106002407 active site 360106002408 dimer interface [polypeptide binding]; other site 360106002409 metal binding site [ion binding]; metal-binding site 360106002410 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 360106002411 Mechanosensitive ion channel; Region: MS_channel; pfam00924 360106002412 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 360106002413 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 360106002414 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 360106002415 FeS/SAM binding site; other site 360106002416 FtsH Extracellular; Region: FtsH_ext; pfam06480 360106002417 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 360106002418 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 360106002419 Walker A motif; other site 360106002420 ATP binding site [chemical binding]; other site 360106002421 Walker B motif; other site 360106002422 arginine finger; other site 360106002423 Peptidase family M41; Region: Peptidase_M41; pfam01434 360106002424 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 360106002425 MPT binding site; other site 360106002426 trimer interface [polypeptide binding]; other site 360106002427 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 360106002428 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360106002429 catalytic residue [active] 360106002430 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 360106002431 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 360106002432 active site 360106002433 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 360106002434 protein binding site [polypeptide binding]; other site 360106002435 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 360106002436 putative substrate binding region [chemical binding]; other site 360106002437 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 360106002438 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 360106002439 substrate binding site [chemical binding]; other site 360106002440 hexamer interface [polypeptide binding]; other site 360106002441 metal binding site [ion binding]; metal-binding site 360106002442 DNA polymerase III subunit epsilon; Provisional; Region: PRK08517 360106002443 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 360106002444 active site 360106002445 catalytic site [active] 360106002446 substrate binding site [chemical binding]; other site 360106002447 primosome assembly protein PriA; Validated; Region: PRK05580 360106002448 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 360106002449 ATP binding site [chemical binding]; other site 360106002450 putative Mg++ binding site [ion binding]; other site 360106002451 helicase superfamily c-terminal domain; Region: HELICc; smart00490 360106002452 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 360106002453 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 360106002454 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 360106002455 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 360106002456 excinuclease ABC subunit B; Provisional; Region: PRK05298 360106002457 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 360106002458 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 360106002459 ATP-binding site [chemical binding]; other site 360106002460 ATP binding site [chemical binding]; other site 360106002461 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 360106002462 nucleotide binding region [chemical binding]; other site 360106002463 ATP-binding site [chemical binding]; other site 360106002464 Ultra-violet resistance protein B; Region: UvrB; pfam12344 360106002465 UvrB/uvrC motif; Region: UVR; pfam02151 360106002466 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 360106002467 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 360106002468 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 360106002469 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 360106002470 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 360106002471 N-terminal plug; other site 360106002472 ligand-binding site [chemical binding]; other site 360106002473 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 360106002474 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 360106002475 polyphosphate kinase; Provisional; Region: PRK05443 360106002476 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 360106002477 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 360106002478 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 360106002479 putative domain interface [polypeptide binding]; other site 360106002480 putative active site [active] 360106002481 catalytic site [active] 360106002482 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 360106002483 putative domain interface [polypeptide binding]; other site 360106002484 putative active site [active] 360106002485 catalytic site [active] 360106002486 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 360106002487 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 360106002488 THF binding site; other site 360106002489 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 360106002490 substrate binding site [chemical binding]; other site 360106002491 THF binding site; other site 360106002492 zinc-binding site [ion binding]; other site 360106002493 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; cl00246 360106002494 FAD binding site [chemical binding]; other site 360106002495 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 360106002496 catalytic core [active] 360106002497 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 360106002498 dinuclear metal binding motif [ion binding]; other site 360106002499 Rhomboid family; Region: Rhomboid; pfam01694 360106002500 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 360106002501 Cysteine-rich domain; Region: CCG; pfam02754 360106002502 Cysteine-rich domain; Region: CCG; pfam02754 360106002503 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 360106002504 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 360106002505 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 360106002506 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 360106002507 Uncharacterized conserved protein [Function unknown]; Region: COG1556 360106002508 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 360106002509 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 360106002510 hinge; other site 360106002511 active site 360106002512 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 360106002513 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 360106002514 dimer interface [polypeptide binding]; other site 360106002515 putative functional site; other site 360106002516 putative MPT binding site; other site 360106002517 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK08515 360106002518 flagella basal body P-ring formation protein FlgA; Region: flgA_cterm; TIGR03170 360106002519 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 360106002520 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 360106002521 active site 360106002522 (T/H)XGH motif; other site 360106002523 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 360106002524 thymidylate kinase; Validated; Region: tmk; PRK00698 360106002525 TMP-binding site; other site 360106002526 ATP-binding site [chemical binding]; other site 360106002527 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 360106002528 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 360106002529 dimer interface [polypeptide binding]; other site 360106002530 motif 1; other site 360106002531 active site 360106002532 motif 2; other site 360106002533 motif 3; other site 360106002534 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 360106002535 anticodon binding site; other site 360106002536 arginine decarboxylase; Provisional; Region: PRK05354 360106002537 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 360106002538 dimer interface [polypeptide binding]; other site 360106002539 active site 360106002540 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360106002541 catalytic residues [active] 360106002542 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 360106002543 serine O-acetyltransferase; Region: cysE; TIGR01172 360106002544 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 360106002545 trimer interface [polypeptide binding]; other site 360106002546 active site 360106002547 substrate binding site [chemical binding]; other site 360106002548 CoA binding site [chemical binding]; other site 360106002549 aspartate aminotransferase; Provisional; Region: PRK05764 360106002550 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 360106002551 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360106002552 homodimer interface [polypeptide binding]; other site 360106002553 catalytic residue [active] 360106002554 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 360106002555 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 360106002556 active site 360106002557 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 360106002558 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 360106002559 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 360106002560 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 360106002561 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 360106002562 2-oxoglutarate-acceptor oxidoreductase subunit OorC; Reviewed; Region: oorC; PRK08441 360106002563 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 360106002564 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 360106002565 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 360106002566 TPP-binding site [chemical binding]; other site 360106002567 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed; Region: oorA; PRK09627 360106002568 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 360106002569 dimer interface [polypeptide binding]; other site 360106002570 PYR/PP interface [polypeptide binding]; other site 360106002571 TPP binding site [chemical binding]; other site 360106002572 substrate binding site [chemical binding]; other site 360106002573 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 360106002574 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 360106002575 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 360106002576 CoA binding domain; Region: CoA_binding; smart00881 360106002577 CoA-ligase; Region: Ligase_CoA; pfam00549 360106002578 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 360106002579 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 360106002580 CoA-ligase; Region: Ligase_CoA; pfam00549 360106002581 malate dehydrogenase; Reviewed; Region: PRK06223 360106002582 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 360106002583 NAD(P) binding site [chemical binding]; other site 360106002584 LDH/MDH dimer interface [polypeptide binding]; other site 360106002585 substrate binding site [chemical binding]; other site 360106002586 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 360106002587 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 360106002588 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 360106002589 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 360106002590 gating phenylalanine in ion channel; other site 360106002591 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E; Region: HAD-SF-IA-v1; TIGR01549 360106002592 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 360106002593 motif II; other site 360106002594 succinic semialdehyde dehydrogenase; Region: PLN02278 360106002595 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 360106002596 tetramerization interface [polypeptide binding]; other site 360106002597 NAD(P) binding site [chemical binding]; other site 360106002598 catalytic residues [active] 360106002599 hydroxylamine reductase; Provisional; Region: PRK12310 360106002600 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 360106002601 ACS interaction site; other site 360106002602 CODH interaction site; other site 360106002603 metal cluster binding site [ion binding]; other site 360106002604 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 360106002605 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 360106002606 homodimer interface [polypeptide binding]; other site 360106002607 substrate-cofactor binding pocket; other site 360106002608 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360106002609 catalytic residue [active] 360106002610 Predicted transcriptional regulator [Transcription]; Region: COG1959 360106002611 Transcriptional regulator; Region: Rrf2; pfam02082 360106002612 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 360106002613 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 360106002614 dimer interface [polypeptide binding]; other site 360106002615 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360106002616 catalytic residue [active] 360106002617 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 360106002618 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK08455 360106002619 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07718 360106002620 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 360106002621 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 360106002622 acetylornithine aminotransferase; Provisional; Region: PRK02627 360106002623 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 360106002624 inhibitor-cofactor binding pocket; inhibition site 360106002625 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360106002626 catalytic residue [active] 360106002627 UPF0126 domain; Region: UPF0126; pfam03458 360106002628 Predicted membrane protein [Function unknown]; Region: COG2860 360106002629 UPF0126 domain; Region: UPF0126; pfam03458 360106002630 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 360106002631 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 360106002632 dimerization interface [polypeptide binding]; other site 360106002633 Protein of unknown function; Region: DUF3971; pfam13116 360106002634 AsmA-like C-terminal region; Region: AsmA_1; pfam13109 360106002635 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 360106002636 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 360106002637 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 360106002638 dimerization interface [polypeptide binding]; other site 360106002639 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 360106002640 ATP binding site [chemical binding]; other site 360106002641 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 360106002642 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 360106002643 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypC; COG0298 360106002644 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 360106002645 nickel responsive regulator; Provisional; Region: PRK00630 360106002646 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 360106002647 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 360106002648 Acylphosphatase; Region: Acylphosphatase; pfam00708 360106002649 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 360106002650 HypF finger; Region: zf-HYPF; pfam07503 360106002651 HypF finger; Region: zf-HYPF; pfam07503 360106002652 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 360106002653 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 360106002654 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 360106002655 putative substrate-binding site; other site 360106002656 nickel binding site [ion binding]; other site 360106002657 Ni/Fe-hydrogenase, b-type cytochrome subunit; Region: CytB-hydogenase; TIGR02125 360106002658 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 360106002659 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 360106002660 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 360106002661 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 360106002662 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 360106002663 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 360106002664 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 360106002665 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 360106002666 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 360106002667 Walker A motif; other site 360106002668 ATP binding site [chemical binding]; other site 360106002669 Walker B motif; other site 360106002670 arginine finger; other site 360106002671 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 360106002672 Walker A motif; other site 360106002673 ATP binding site [chemical binding]; other site 360106002674 Walker B motif; other site 360106002675 arginine finger; other site 360106002676 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 360106002677 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 360106002678 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 360106002679 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 360106002680 protein binding site [polypeptide binding]; other site 360106002681 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 360106002682 Catalytic dyad [active] 360106002683 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 360106002684 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 360106002685 ATP binding site [chemical binding]; other site 360106002686 active site 360106002687 substrate binding site [chemical binding]; other site 360106002688 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 360106002689 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 360106002690 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 360106002691 putative active site [active] 360106002692 catalytic triad [active] 360106002693 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 360106002694 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 360106002695 putative acyl-acceptor binding pocket; other site 360106002696 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 360106002697 Cytolethal distending toxin A/C family; Region: CDtoxinA; pfam03498 360106002698 Cytolethal distending toxin A/C family; Region: CDtoxinA; pfam03498 360106002699 putative sugar binding sites [chemical binding]; other site 360106002700 Q-X-W motif; other site 360106002701 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 360106002702 Cytolethal distending toxin A/C family; Region: CDtoxinA; pfam03498 360106002703 CdtB, the catalytic DNase I-like subunit of cytolethal distending toxin (CDT) protein; Region: CdtB; cd09081 360106002704 putative catalytic site [active] 360106002705 CdtC interface [polypeptide binding]; other site 360106002706 heterotrimer interface [polypeptide binding]; other site 360106002707 CdtA interface [polypeptide binding]; other site 360106002708 putative metal binding site [ion binding]; other site 360106002709 putative phosphate binding site [ion binding]; other site 360106002710 Cytolethal distending toxin A/C family; Region: CDtoxinA; pfam03498 360106002711 putative sugar binding sites [chemical binding]; other site 360106002712 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 360106002713 Q-X-W motif; other site 360106002714 heat shock protein 90; Provisional; Region: PRK05218 360106002715 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 360106002716 ATP binding site [chemical binding]; other site 360106002717 Mg2+ binding site [ion binding]; other site 360106002718 G-X-G motif; other site 360106002719 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 360106002720 active site residue [active] 360106002721 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 360106002722 S-adenosylmethionine binding site [chemical binding]; other site 360106002723 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 360106002724 Part of AAA domain; Region: AAA_19; pfam13245 360106002725 Family description; Region: UvrD_C_2; pfam13538 360106002726 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 360106002727 fumarate hydratase; Reviewed; Region: fumC; PRK00485 360106002728 Class II fumarases; Region: Fumarase_classII; cd01362 360106002729 active site 360106002730 tetramer interface [polypeptide binding]; other site 360106002731 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 360106002732 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360106002733 active site 360106002734 HIGH motif; other site 360106002735 nucleotide binding site [chemical binding]; other site 360106002736 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 360106002737 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 360106002738 active site 360106002739 KMSKS motif; other site 360106002740 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 360106002741 tRNA binding surface [nucleotide binding]; other site 360106002742 anticodon binding site; other site 360106002743 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 360106002744 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 360106002745 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 360106002746 Walker A/P-loop; other site 360106002747 ATP binding site [chemical binding]; other site 360106002748 Q-loop/lid; other site 360106002749 ABC transporter signature motif; other site 360106002750 Walker B; other site 360106002751 D-loop; other site 360106002752 H-loop/switch region; other site 360106002753 NIL domain; Region: NIL; pfam09383 360106002754 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 360106002755 dimer interface [polypeptide binding]; other site 360106002756 conserved gate region; other site 360106002757 ABC-ATPase subunit interface; other site 360106002758 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 360106002759 dimer interface [polypeptide binding]; other site 360106002760 substrate binding site [chemical binding]; other site 360106002761 ATP binding site [chemical binding]; other site 360106002762 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 360106002763 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 360106002764 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 360106002765 Ion channel; Region: Ion_trans_2; pfam07885 360106002766 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 360106002767 TrkA-N domain; Region: TrkA_N; pfam02254 360106002768 TrkA-C domain; Region: TrkA_C; pfam02080 360106002769 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 360106002770 heterotetramer interface [polypeptide binding]; other site 360106002771 active site pocket [active] 360106002772 cleavage site 360106002773 Protein of unknown function (DUF465); Region: DUF465; cl01070 360106002774 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360106002775 dimer interface [polypeptide binding]; other site 360106002776 putative CheW interface [polypeptide binding]; other site 360106002777 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 360106002778 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 360106002779 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 360106002780 S-adenosylmethionine binding site [chemical binding]; other site 360106002781 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 360106002782 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 360106002783 putative NAD(P) binding site [chemical binding]; other site 360106002784 homotetramer interface [polypeptide binding]; other site 360106002785 homodimer interface [polypeptide binding]; other site 360106002786 active site 360106002787 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 360106002788 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 360106002789 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 360106002790 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 360106002791 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3400 360106002792 TrkA-C domain; Region: TrkA_C; pfam02080 360106002793 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 360106002794 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 360106002795 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 360106002796 oligomer interface [polypeptide binding]; other site 360106002797 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 360106002798 replicative DNA helicase; Provisional; Region: PRK08506 360106002799 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 360106002800 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 360106002801 Walker A motif; other site 360106002802 ATP binding site [chemical binding]; other site 360106002803 Walker B motif; other site 360106002804 DNA binding loops [nucleotide binding] 360106002805 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 360106002806 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 360106002807 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 360106002808 Protein of unknown function DUF45; Region: DUF45; pfam01863 360106002809 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 360106002810 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 360106002811 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 360106002812 ATP binding site [chemical binding]; other site 360106002813 putative Mg++ binding site [ion binding]; other site 360106002814 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 360106002815 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 360106002816 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 360106002817 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 360106002818 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 360106002819 HsdM N-terminal domain; Region: HsdM_N; pfam12161 360106002820 Methyltransferase domain; Region: Methyltransf_26; pfam13659 360106002821 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 360106002822 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 360106002823 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 360106002824 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 360106002825 apolar tunnel; other site 360106002826 heme binding site [chemical binding]; other site 360106002827 dimerization interface [polypeptide binding]; other site 360106002828 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 360106002829 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 360106002830 substrate binding site [chemical binding]; other site 360106002831 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 360106002832 substrate binding site [chemical binding]; other site 360106002833 ligand binding site [chemical binding]; other site 360106002834 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 360106002835 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 360106002836 DNA binding site [nucleotide binding] 360106002837 active site 360106002838 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 360106002839 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 360106002840 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; cl00522 360106002841 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 360106002842 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 360106002843 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 360106002844 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 360106002845 active site 360106002846 HslU subunit interaction site [polypeptide binding]; other site 360106002847 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 360106002848 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 360106002849 Walker A motif; other site 360106002850 ATP binding site [chemical binding]; other site 360106002851 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 360106002852 Walker B motif; other site 360106002853 arginine finger; other site 360106002854 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 360106002855 GTPase Era; Reviewed; Region: era; PRK00089 360106002856 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 360106002857 G1 box; other site 360106002858 GTP/Mg2+ binding site [chemical binding]; other site 360106002859 Switch I region; other site 360106002860 G2 box; other site 360106002861 Switch II region; other site 360106002862 G3 box; other site 360106002863 G4 box; other site 360106002864 G5 box; other site 360106002865 KH domain; Region: KH_2; pfam07650 360106002866 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 360106002867 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 360106002868 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 360106002869 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 360106002870 Walker A motif; other site 360106002871 ATP binding site [chemical binding]; other site 360106002872 Walker B motif; other site 360106002873 arginine finger; other site 360106002874 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 360106002875 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 360106002876 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 360106002877 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 360106002878 Walker A motif; other site 360106002879 ATP binding site [chemical binding]; other site 360106002880 Walker B motif; other site 360106002881 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 360106002882 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 360106002883 Serine-threonine protein kinase 19; Region: Stk19; pfam10494 360106002884 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 360106002885 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 360106002886 PAS domain; Region: PAS_9; pfam13426 360106002887 putative active site [active] 360106002888 heme pocket [chemical binding]; other site 360106002889 Yqey-like protein; Region: YqeY; pfam09424 360106002890 exopolyphosphatase; Region: exo_poly_only; TIGR03706 360106002891 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 360106002892 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 360106002893 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 360106002894 active site 360106002895 NTP binding site [chemical binding]; other site 360106002896 metal binding triad [ion binding]; metal-binding site 360106002897 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 360106002898 tartrate dehydrogenase; Region: TTC; TIGR02089 360106002899 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 360106002900 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 360106002901 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 360106002902 substrate binding site [chemical binding]; other site 360106002903 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 360106002904 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 360106002905 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 360106002906 active site 360106002907 homodimer interface [polypeptide binding]; other site 360106002908 homotetramer interface [polypeptide binding]; other site 360106002909 DNA recombination protein RmuC; Provisional; Region: PRK10361 360106002910 RmuC family; Region: RmuC; pfam02646 360106002911 Predicted permeases [General function prediction only]; Region: COG0679 360106002912 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 360106002913 PhnA protein; Region: PhnA; pfam03831 360106002914 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 360106002915 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 360106002916 motif 1; other site 360106002917 active site 360106002918 motif 2; other site 360106002919 motif 3; other site 360106002920 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 360106002921 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 360106002922 DHHA1 domain; Region: DHHA1; pfam02272 360106002923 Maf-like protein; Region: Maf; pfam02545 360106002924 Maf-like protein; Reviewed; Region: PRK04056 360106002925 putative active site [active] 360106002926 Transglycosylase; Region: Transgly; pfam00912 360106002927 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 360106002928 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 360106002929 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 360106002930 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 360106002931 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 360106002932 RimM N-terminal domain; Region: RimM; pfam01782 360106002933 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK14593 360106002934 PRC-barrel domain; Region: PRC; pfam05239 360106002935 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 360106002936 KH domain; Region: KH_4; pfam13083 360106002937 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 360106002938 signal recognition particle protein; Provisional; Region: PRK10867 360106002939 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 360106002940 P loop; other site 360106002941 GTP binding site [chemical binding]; other site 360106002942 Signal peptide binding domain; Region: SRP_SPB; pfam02978 360106002943 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 360106002944 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 360106002945 transmembrane helices; other site 360106002946 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 360106002947 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360106002948 dimer interface [polypeptide binding]; other site 360106002949 putative CheW interface [polypeptide binding]; other site 360106002950 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 360106002951 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 360106002952 active site 360106002953 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 360106002954 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 360106002955 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 360106002956 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 360106002957 Putative zinc ribbon domain; Region: DUF164; pfam02591 360106002958 Uncharacterized conserved protein [Function unknown]; Region: COG0327 360106002959 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 360106002960 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 360106002961 dimer interface [polypeptide binding]; other site 360106002962 motif 1; other site 360106002963 active site 360106002964 motif 2; other site 360106002965 motif 3; other site 360106002966 Protein of unknown function (DUF3972); Region: DUF3972; pfam13118 360106002967 AIR carboxylase; Region: AIRC; smart01001 360106002968 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 360106002969 Peptidase family U32; Region: Peptidase_U32; pfam01136 360106002970 histidinol-phosphatase; Provisional; Region: PRK07328 360106002971 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 360106002972 active site 360106002973 dimer interface [polypeptide binding]; other site 360106002974 glutamine synthetase, type I; Region: GlnA; TIGR00653 360106002975 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 360106002976 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 360106002977 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 360106002978 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 360106002979 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 360106002980 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 360106002981 tetramer interface [polypeptide binding]; other site 360106002982 heme binding pocket [chemical binding]; other site 360106002983 NADPH binding site [chemical binding]; other site 360106002984 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 360106002985 Acylphosphatase; Region: Acylphosphatase; cl00551 360106002986 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 360106002987 Walker A motif; other site 360106002988 ATP binding site [chemical binding]; other site 360106002989 Walker B motif; other site 360106002990 arginine finger; other site 360106002991 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 360106002992 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 360106002993 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 360106002994 Transcriptional regulator [Transcription]; Region: IclR; COG1414 360106002995 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 360106002996 Bacterial transcriptional regulator; Region: IclR; pfam01614 360106002997 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 360106002998 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 360106002999 inhibitor site; inhibition site 360106003000 active site 360106003001 dimer interface [polypeptide binding]; other site 360106003002 catalytic residue [active] 360106003003 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 360106003004 galactarate dehydratase; Region: galactar-dH20; TIGR03248 360106003005 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 360106003006 short chain dehydrogenase; Provisional; Region: PRK08628 360106003007 classical (c) SDRs; Region: SDR_c; cd05233 360106003008 NAD(P) binding site [chemical binding]; other site 360106003009 active site 360106003010 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 360106003011 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 360106003012 putative substrate translocation pore; other site 360106003013 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 360106003014 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 360106003015 Domain of unknown function (DUF718); Region: DUF718; pfam05336 360106003016 flagellar assembly protein FliW; Provisional; Region: PRK13282 360106003017 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 360106003018 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 360106003019 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 360106003020 30S subunit binding site; other site 360106003021 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 360106003022 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 360106003023 metal binding site [ion binding]; metal-binding site 360106003024 Methyltransferase domain; Region: Methyltransf_23; pfam13489 360106003025 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 360106003026 S-adenosylmethionine binding site [chemical binding]; other site 360106003027 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 360106003028 CoenzymeA binding site [chemical binding]; other site 360106003029 subunit interaction site [polypeptide binding]; other site 360106003030 PHB binding site; other site 360106003031 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 360106003032 NAD synthetase; Provisional; Region: PRK13980 360106003033 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 360106003034 homodimer interface [polypeptide binding]; other site 360106003035 NAD binding pocket [chemical binding]; other site 360106003036 ATP binding pocket [chemical binding]; other site 360106003037 Mg binding site [ion binding]; other site 360106003038 active-site loop [active] 360106003039 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 360106003040 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 360106003041 inhibitor-cofactor binding pocket; inhibition site 360106003042 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360106003043 catalytic residue [active] 360106003044 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 360106003045 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 360106003046 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 360106003047 feedback inhibition sensing region; other site 360106003048 homohexameric interface [polypeptide binding]; other site 360106003049 nucleotide binding site [chemical binding]; other site 360106003050 N-acetyl-L-glutamate binding site [chemical binding]; other site 360106003051 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 360106003052 threonine synthase; Validated; Region: PRK09225 360106003053 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 360106003054 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360106003055 catalytic residue [active] 360106003056 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 360106003057 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 360106003058 Ligand binding site; other site 360106003059 oligomer interface; other site 360106003060 hypothetical protein; Provisional; Region: PRK10410 360106003061 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360106003062 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360106003063 metal binding site [ion binding]; metal-binding site 360106003064 active site 360106003065 I-site; other site 360106003066 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360106003067 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360106003068 metal binding site [ion binding]; metal-binding site 360106003069 active site 360106003070 I-site; other site 360106003071 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 360106003072 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 360106003073 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 360106003074 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 360106003075 DsbD alpha interface [polypeptide binding]; other site 360106003076 catalytic residues [active] 360106003077 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 360106003078 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 360106003079 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 360106003080 nucleotide binding site [chemical binding]; other site 360106003081 NEF interaction site [polypeptide binding]; other site 360106003082 SBD interface [polypeptide binding]; other site 360106003083 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 360106003084 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 360106003085 dimer interface [polypeptide binding]; other site 360106003086 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 360106003087 heat-inducible transcription repressor; Provisional; Region: PRK03911 360106003088 DHH family; Region: DHH; pfam01368 360106003089 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 360106003090 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 360106003091 FHIPEP family; Region: FHIPEP; pfam00771 360106003092 Rrf2 family protein; Region: rrf2_super; TIGR00738 360106003093 Transcriptional regulator; Region: Rrf2; pfam02082 360106003094 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 360106003095 16S/18S rRNA binding site [nucleotide binding]; other site 360106003096 S13e-L30e interaction site [polypeptide binding]; other site 360106003097 25S rRNA binding site [nucleotide binding]; other site 360106003098 para-aminobenzoate synthase component I; Validated; Region: PRK07093 360106003099 hypothetical protein; Provisional; Region: PRK07101 360106003100 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 360106003101 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 360106003102 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 360106003103 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 360106003104 Walker A/P-loop; other site 360106003105 ATP binding site [chemical binding]; other site 360106003106 Q-loop/lid; other site 360106003107 ABC transporter signature motif; other site 360106003108 Walker B; other site 360106003109 D-loop; other site 360106003110 H-loop/switch region; other site 360106003111 TOBE domain; Region: TOBE_2; pfam08402 360106003112 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 360106003113 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 360106003114 dimer interface [polypeptide binding]; other site 360106003115 conserved gate region; other site 360106003116 putative PBP binding loops; other site 360106003117 ABC-ATPase subunit interface; other site 360106003118 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 360106003119 dimer interface [polypeptide binding]; other site 360106003120 conserved gate region; other site 360106003121 putative PBP binding loops; other site 360106003122 ABC-ATPase subunit interface; other site 360106003123 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 360106003124 Phosphopentomutase [Carbohydrate transport and metabolism]; Region: DeoB; cl17415 360106003125 Methyltransferase domain; Region: Methyltransf_31; pfam13847 360106003126 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 360106003127 S-adenosylmethionine binding site [chemical binding]; other site 360106003128 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 360106003129 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360106003130 active site 360106003131 nucleotide binding site [chemical binding]; other site 360106003132 HIGH motif; other site 360106003133 KMSKS motif; other site 360106003134 Riboflavin kinase; Region: Flavokinase; smart00904 360106003135 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 360106003136 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 360106003137 RNA binding surface [nucleotide binding]; other site 360106003138 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 360106003139 S-adenosylmethionine binding site [chemical binding]; other site 360106003140 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 360106003141 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 360106003142 nucleotide binding pocket [chemical binding]; other site 360106003143 K-X-D-G motif; other site 360106003144 catalytic site [active] 360106003145 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 360106003146 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 360106003147 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 360106003148 Dimer interface [polypeptide binding]; other site 360106003149 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 360106003150 dihydropteroate synthase; Region: DHPS; TIGR01496 360106003151 substrate binding pocket [chemical binding]; other site 360106003152 dimer interface [polypeptide binding]; other site 360106003153 inhibitor binding site; inhibition site 360106003154 DNA polymerase III subunit delta'; Validated; Region: PRK08485 360106003155 DNA replication regulator; Region: HobA; pfam12163 360106003156 aspartate kinase; Reviewed; Region: PRK06635 360106003157 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 360106003158 putative nucleotide binding site [chemical binding]; other site 360106003159 putative catalytic residues [active] 360106003160 putative Mg ion binding site [ion binding]; other site 360106003161 putative aspartate binding site [chemical binding]; other site 360106003162 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 360106003163 putative allosteric regulatory site; other site 360106003164 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 360106003165 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 360106003166 putative active site [active] 360106003167 Ap4A binding site [chemical binding]; other site 360106003168 nudix motif; other site 360106003169 putative metal binding site [ion binding]; other site 360106003170 coproporphyrinogen III oxidase; Provisional; Region: PRK08446 360106003171 sec-independent translocase; Provisional; Region: PRK04098 360106003172 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 360106003173 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 360106003174 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 360106003175 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 360106003176 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 360106003177 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 360106003178 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 360106003179 DNA protecting protein DprA; Region: dprA; TIGR00732 360106003180 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 360106003181 NodB motif; other site 360106003182 putative active site [active] 360106003183 putative catalytic site [active] 360106003184 Zn binding site [ion binding]; other site 360106003185 ketol-acid reductoisomerase; Provisional; Region: PRK05479 360106003186 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 360106003187 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 360106003188 HDOD domain; Region: HDOD; pfam08668 360106003189 Exoribonuclease R [Transcription]; Region: VacB; COG0557 360106003190 RNB domain; Region: RNB; pfam00773 360106003191 DNA polymerase III subunit delta; Validated; Region: PRK08487 360106003192 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 360106003193 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 360106003194 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 360106003195 dimer interface [polypeptide binding]; other site 360106003196 ssDNA binding site [nucleotide binding]; other site 360106003197 tetramer (dimer of dimers) interface [polypeptide binding]; other site 360106003198 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 360106003199 chaperone protein DnaJ; Provisional; Region: PRK10767 360106003200 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 360106003201 HSP70 interaction site [polypeptide binding]; other site 360106003202 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 360106003203 substrate binding site [polypeptide binding]; other site 360106003204 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 360106003205 Zn binding sites [ion binding]; other site 360106003206 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 360106003207 dimer interface [polypeptide binding]; other site 360106003208 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360106003209 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360106003210 active site 360106003211 phosphorylation site [posttranslational modification] 360106003212 intermolecular recognition site; other site 360106003213 dimerization interface [polypeptide binding]; other site 360106003214 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 360106003215 DNA binding site [nucleotide binding] 360106003216 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360106003217 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 360106003218 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 360106003219 dimer interface [polypeptide binding]; other site 360106003220 phosphorylation site [posttranslational modification] 360106003221 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 360106003222 ATP binding site [chemical binding]; other site 360106003223 Mg2+ binding site [ion binding]; other site 360106003224 G-X-G motif; other site 360106003225 recombination protein RecR; Reviewed; Region: recR; PRK00076 360106003226 RecR protein; Region: RecR; pfam02132 360106003227 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 360106003228 putative active site [active] 360106003229 putative metal-binding site [ion binding]; other site 360106003230 tetramer interface [polypeptide binding]; other site 360106003231 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 360106003232 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 360106003233 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 360106003234 shikimate binding site; other site 360106003235 NAD(P) binding site [chemical binding]; other site 360106003236 Sporulation related domain; Region: SPOR; pfam05036 360106003237 Domain of unknown function (DUF1882); Region: DUF1882; pfam08966 360106003238 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 360106003239 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 360106003240 dimer interface [polypeptide binding]; other site 360106003241 active site 360106003242 glycine-pyridoxal phosphate binding site [chemical binding]; other site 360106003243 folate binding site [chemical binding]; other site 360106003244 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 360106003245 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 360106003246 dimer interface [polypeptide binding]; other site 360106003247 putative anticodon binding site; other site 360106003248 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 360106003249 motif 1; other site 360106003250 active site 360106003251 motif 2; other site 360106003252 motif 3; other site 360106003253 ferric uptake regulator; Provisional; Region: fur; PRK09462 360106003254 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 360106003255 metal binding site 2 [ion binding]; metal-binding site 360106003256 putative DNA binding helix; other site 360106003257 metal binding site 1 [ion binding]; metal-binding site 360106003258 dimer interface [polypeptide binding]; other site 360106003259 structural Zn2+ binding site [ion binding]; other site 360106003260 Colicin V production protein; Region: Colicin_V; pfam02674 360106003261 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 360106003262 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 360106003263 ATP binding site [chemical binding]; other site 360106003264 Walker B motif; other site 360106003265 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 360106003266 PQQ-like domain; Region: PQQ_2; pfam13360 360106003267 pantothenate kinase; Reviewed; Region: PRK13333 360106003268 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 360106003269 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 360106003270 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 360106003271 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 360106003272 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 360106003273 putative active site [active] 360106003274 putative metal binding site [ion binding]; other site 360106003275 phosphatidylserine decarboxylase; Provisional; Region: PRK03934 360106003276 NapD protein; Region: NapD; cl01163 360106003277 ferredoxin-type protein; Provisional; Region: PRK10194 360106003278 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 360106003279 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 360106003280 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 360106003281 4Fe-4S binding domain; Region: Fer4_5; pfam12801 360106003282 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 360106003283 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 360106003284 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 360106003285 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 360106003286 molybdopterin cofactor binding site; other site 360106003287 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 360106003288 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 360106003289 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 360106003290 molybdopterin cofactor binding site; other site 360106003291 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 360106003292 dimer interface [polypeptide binding]; other site 360106003293 conserved gate region; other site 360106003294 putative PBP binding loops; other site 360106003295 ABC-ATPase subunit interface; other site 360106003296 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 360106003297 dimer interface [polypeptide binding]; other site 360106003298 conserved gate region; other site 360106003299 putative PBP binding loops; other site 360106003300 ABC-ATPase subunit interface; other site 360106003301 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed; Region: PRK11917 360106003302 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 360106003303 substrate binding pocket [chemical binding]; other site 360106003304 membrane-bound complex binding site; other site 360106003305 hinge residues; other site 360106003306 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 360106003307 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 360106003308 Walker A/P-loop; other site 360106003309 ATP binding site [chemical binding]; other site 360106003310 Q-loop/lid; other site 360106003311 ABC transporter signature motif; other site 360106003312 Walker B; other site 360106003313 D-loop; other site 360106003314 H-loop/switch region; other site 360106003315 GTP-binding protein YchF; Reviewed; Region: PRK09601 360106003316 YchF GTPase; Region: YchF; cd01900 360106003317 G1 box; other site 360106003318 GTP/Mg2+ binding site [chemical binding]; other site 360106003319 Switch I region; other site 360106003320 G2 box; other site 360106003321 Switch II region; other site 360106003322 G3 box; other site 360106003323 G4 box; other site 360106003324 G5 box; other site 360106003325 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 360106003326 multifunctional aminopeptidase A; Provisional; Region: PRK00913 360106003327 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 360106003328 interface (dimer of trimers) [polypeptide binding]; other site 360106003329 Substrate-binding/catalytic site; other site 360106003330 Zn-binding sites [ion binding]; other site 360106003331 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 360106003332 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 360106003333 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360106003334 active site 360106003335 Protein of unknown function (DUF972); Region: DUF972; pfam06156 360106003336 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 360106003337 Peptidase family M50; Region: Peptidase_M50; pfam02163 360106003338 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 360106003339 active site 360106003340 putative substrate binding region [chemical binding]; other site 360106003341 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 360106003342 Catalytic site [active] 360106003343 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 360106003344 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14191 360106003345 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 360106003346 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 360106003347 homodimer interface [polypeptide binding]; other site 360106003348 NADP binding site [chemical binding]; other site 360106003349 substrate binding site [chemical binding]; other site 360106003350 Cytochrome c; Region: Cytochrom_C; pfam00034 360106003351 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 360106003352 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 360106003353 inhibitor-cofactor binding pocket; inhibition site 360106003354 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360106003355 catalytic residue [active] 360106003356 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 360106003357 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 360106003358 Major Facilitator Superfamily; Region: MFS_1; pfam07690 360106003359 putative substrate translocation pore; other site 360106003360 flhB C-terminus-related protein; Region: flhB_rel; TIGR00789 360106003361 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 360106003362 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 360106003363 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 360106003364 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360106003365 Coenzyme A binding pocket [chemical binding]; other site 360106003366 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 360106003367 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 360106003368 G1 box; other site 360106003369 GTP/Mg2+ binding site [chemical binding]; other site 360106003370 Switch I region; other site 360106003371 G2 box; other site 360106003372 G3 box; other site 360106003373 Switch II region; other site 360106003374 G4 box; other site 360106003375 G5 box; other site 360106003376 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 360106003377 OstA-like protein; Region: OstA; pfam03968 360106003378 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 360106003379 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 360106003380 putative active site pocket [active] 360106003381 4-fold oligomerization interface [polypeptide binding]; other site 360106003382 metal binding residues [ion binding]; metal-binding site 360106003383 3-fold/trimer interface [polypeptide binding]; other site 360106003384 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 360106003385 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 360106003386 Sporulation related domain; Region: SPOR; pfam05036 360106003387 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 360106003388 N-acetyl-D-glucosamine binding site [chemical binding]; other site 360106003389 catalytic residue [active] 360106003390 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 360106003391 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 360106003392 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 360106003393 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 360106003394 active site 360106003395 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 360106003396 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360106003397 active site 360106003398 phosphorylation site [posttranslational modification] 360106003399 intermolecular recognition site; other site 360106003400 Response regulator receiver domain; Region: Response_reg; pfam00072 360106003401 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360106003402 active site 360106003403 phosphorylation site [posttranslational modification] 360106003404 intermolecular recognition site; other site 360106003405 dimerization interface [polypeptide binding]; other site 360106003406 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360106003407 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360106003408 metal binding site [ion binding]; metal-binding site 360106003409 active site 360106003410 I-site; other site 360106003411 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 360106003412 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360106003413 Walker A/P-loop; other site 360106003414 ATP binding site [chemical binding]; other site 360106003415 Q-loop/lid; other site 360106003416 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 360106003417 ABC transporter signature motif; other site 360106003418 Walker B; other site 360106003419 D-loop; other site 360106003420 H-loop/switch region; other site 360106003421 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: pnk; PRK14077 360106003422 ATP-NAD kinase; Region: NAD_kinase; pfam01513 360106003423 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 360106003424 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 360106003425 dimer interface [polypeptide binding]; other site 360106003426 anticodon binding site; other site 360106003427 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 360106003428 homodimer interface [polypeptide binding]; other site 360106003429 motif 1; other site 360106003430 active site 360106003431 motif 2; other site 360106003432 GAD domain; Region: GAD; pfam02938 360106003433 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 360106003434 active site 360106003435 motif 3; other site 360106003436 adenylate kinase; Reviewed; Region: adk; PRK00279 360106003437 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 360106003438 AMP-binding site [chemical binding]; other site 360106003439 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 360106003440 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 360106003441 dimer interface [polypeptide binding]; other site 360106003442 substrate binding site [chemical binding]; other site 360106003443 metal binding sites [ion binding]; metal-binding site 360106003444 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 360106003445 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 360106003446 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 360106003447 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360106003448 Walker A/P-loop; other site 360106003449 ATP binding site [chemical binding]; other site 360106003450 Q-loop/lid; other site 360106003451 ABC transporter signature motif; other site 360106003452 Walker B; other site 360106003453 D-loop; other site 360106003454 H-loop/switch region; other site 360106003455 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 360106003456 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 360106003457 ABC-ATPase subunit interface; other site 360106003458 dimer interface [polypeptide binding]; other site 360106003459 putative PBP binding regions; other site 360106003460 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 360106003461 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 360106003462 intersubunit interface [polypeptide binding]; other site 360106003463 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 360106003464 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 360106003465 N-terminal plug; other site 360106003466 ligand-binding site [chemical binding]; other site 360106003467 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 360106003468 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 360106003469 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 360106003470 Uncharacterized conserved protein [Function unknown]; Region: COG4121 360106003471 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 360106003472 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 360106003473 active site 360106003474 metal binding site [ion binding]; metal-binding site 360106003475 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 360106003476 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 360106003477 FMN binding site [chemical binding]; other site 360106003478 substrate binding site [chemical binding]; other site 360106003479 putative catalytic residue [active] 360106003480 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 360106003481 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 360106003482 active site 360106003483 HIGH motif; other site 360106003484 dimer interface [polypeptide binding]; other site 360106003485 KMSKS motif; other site 360106003486 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 360106003487 RNA binding surface [nucleotide binding]; other site 360106003488 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 360106003489 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 360106003490 Zn2+ binding site [ion binding]; other site 360106003491 Mg2+ binding site [ion binding]; other site 360106003492 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 360106003493 synthetase active site [active] 360106003494 NTP binding site [chemical binding]; other site 360106003495 metal binding site [ion binding]; metal-binding site 360106003496 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 360106003497 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 360106003498 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 360106003499 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 360106003500 putative nucleotide binding site [chemical binding]; other site 360106003501 uridine monophosphate binding site [chemical binding]; other site 360106003502 homohexameric interface [polypeptide binding]; other site 360106003503 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 360106003504 Peptidase family M23; Region: Peptidase_M23; pfam01551 360106003505 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 360106003506 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 360106003507 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 360106003508 Walker A/P-loop; other site 360106003509 ATP binding site [chemical binding]; other site 360106003510 Q-loop/lid; other site 360106003511 ABC transporter signature motif; other site 360106003512 Walker B; other site 360106003513 D-loop; other site 360106003514 H-loop/switch region; other site 360106003515 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 360106003516 S-adenosylmethionine binding site [chemical binding]; other site 360106003517 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 360106003518 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 360106003519 Interdomain contacts; other site 360106003520 Cytokine receptor motif; other site 360106003521 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 360106003522 Interdomain contacts; other site 360106003523 Cytokine receptor motif; other site 360106003524 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 360106003525 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 360106003526 RNA binding surface [nucleotide binding]; other site 360106003527 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 360106003528 active site 360106003529 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 360106003530 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 360106003531 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 360106003532 Cu(I) binding site [ion binding]; other site 360106003533 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360106003534 dimer interface [polypeptide binding]; other site 360106003535 putative CheW interface [polypeptide binding]; other site 360106003536 Predicted transcriptional regulators [Transcription]; Region: COG1733 360106003537 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 360106003538 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 360106003539 NADH(P)-binding; Region: NAD_binding_10; pfam13460 360106003540 NAD binding site [chemical binding]; other site 360106003541 substrate binding site [chemical binding]; other site 360106003542 putative active site [active] 360106003543 Cation efflux family; Region: Cation_efflux; cl00316 360106003544 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 360106003545 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360106003546 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 360106003547 putative transporter; Provisional; Region: PRK10484 360106003548 Na binding site [ion binding]; other site 360106003549 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 360106003550 dimer interface [polypeptide binding]; other site 360106003551 conserved gate region; other site 360106003552 putative PBP binding loops; other site 360106003553 ABC-ATPase subunit interface; other site 360106003554 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 360106003555 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 360106003556 Walker A/P-loop; other site 360106003557 ATP binding site [chemical binding]; other site 360106003558 Q-loop/lid; other site 360106003559 ABC transporter signature motif; other site 360106003560 Walker B; other site 360106003561 D-loop; other site 360106003562 H-loop/switch region; other site 360106003563 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 360106003564 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 360106003565 substrate binding pocket [chemical binding]; other site 360106003566 membrane-bound complex binding site; other site 360106003567 hinge residues; other site 360106003568 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 360106003569 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 360106003570 substrate binding pocket [chemical binding]; other site 360106003571 membrane-bound complex binding site; other site 360106003572 hinge residues; other site 360106003573 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 360106003574 thiamine phosphate binding site [chemical binding]; other site 360106003575 active site 360106003576 pyrophosphate binding site [ion binding]; other site 360106003577 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 360106003578 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 360106003579 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 360106003580 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360106003581 catalytic residue [active] 360106003582 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 360106003583 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 360106003584 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 360106003585 dimer interface [polypeptide binding]; other site 360106003586 phosphorylation site [posttranslational modification] 360106003587 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 360106003588 ATP binding site [chemical binding]; other site 360106003589 Mg2+ binding site [ion binding]; other site 360106003590 G-X-G motif; other site 360106003591 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 360106003592 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 360106003593 active site 360106003594 PHP Thumb interface [polypeptide binding]; other site 360106003595 metal binding site [ion binding]; metal-binding site 360106003596 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 360106003597 generic binding surface II; other site 360106003598 generic binding surface I; other site 360106003599 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 360106003600 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 360106003601 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 360106003602 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 360106003603 Glutamate binding site [chemical binding]; other site 360106003604 NAD binding site [chemical binding]; other site 360106003605 catalytic residues [active] 360106003606 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 360106003607 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 360106003608 Na binding site [ion binding]; other site 360106003609 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 360106003610 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 360106003611 Formate-dependent nitrite reductase, periplasmic cytochrome c552 subunit [Inorganic ion transport and metabolism]; Region: NrfA; COG3303 360106003612 DJ-1 family protein; Region: not_thiJ; TIGR01383 360106003613 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 360106003614 conserved cys residue [active] 360106003615 elongation factor P; Validated; Region: PRK00529 360106003616 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 360106003617 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 360106003618 RNA binding site [nucleotide binding]; other site 360106003619 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 360106003620 RNA binding site [nucleotide binding]; other site 360106003621 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 360106003622 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 360106003623 ligand binding site [chemical binding]; other site 360106003624 NAD binding site [chemical binding]; other site 360106003625 dimerization interface [polypeptide binding]; other site 360106003626 catalytic site [active] 360106003627 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 360106003628 putative L-serine binding site [chemical binding]; other site 360106003629 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 360106003630 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 360106003631 RNA binding site [nucleotide binding]; other site 360106003632 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 360106003633 RNA binding site [nucleotide binding]; other site 360106003634 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 360106003635 RNA binding site [nucleotide binding]; other site 360106003636 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 360106003637 RNA binding site [nucleotide binding]; other site 360106003638 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 360106003639 RNA binding site [nucleotide binding]; other site 360106003640 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 360106003641 RNA binding site [nucleotide binding]; other site 360106003642 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 360106003643 LytB protein; Region: LYTB; pfam02401 360106003644 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 360106003645 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 360106003646 hinge; other site 360106003647 active site 360106003648 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 360106003649 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 360106003650 putative tRNA-binding site [nucleotide binding]; other site 360106003651 B3/4 domain; Region: B3_4; pfam03483 360106003652 tRNA synthetase B5 domain; Region: B5; smart00874 360106003653 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 360106003654 dimer interface [polypeptide binding]; other site 360106003655 motif 1; other site 360106003656 motif 3; other site 360106003657 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 360106003658 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 360106003659 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 360106003660 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 360106003661 dimer interface [polypeptide binding]; other site 360106003662 motif 1; other site 360106003663 active site 360106003664 motif 2; other site 360106003665 motif 3; other site 360106003666 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 360106003667 nucleotide binding site/active site [active] 360106003668 HIT family signature motif; other site 360106003669 catalytic residue [active] 360106003670 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 360106003671 Ligand Binding Site [chemical binding]; other site 360106003672 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 360106003673 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 360106003674 oligomer interface [polypeptide binding]; other site 360106003675 RNA binding site [nucleotide binding]; other site 360106003676 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 360106003677 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 360106003678 RNase E interface [polypeptide binding]; other site 360106003679 trimer interface [polypeptide binding]; other site 360106003680 active site 360106003681 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 360106003682 putative nucleic acid binding region [nucleotide binding]; other site 360106003683 G-X-X-G motif; other site 360106003684 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 360106003685 RNA binding site [nucleotide binding]; other site 360106003686 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 360106003687 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 360106003688 Organic solvent tolerance protein; Region: OstA_C; pfam04453 360106003689 RDD family; Region: RDD; pfam06271 360106003690 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 360106003691 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 360106003692 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 360106003693 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 360106003694 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 360106003695 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 360106003696 active site 360106003697 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 360106003698 putative active site [active] 360106003699 GMP synthase; Reviewed; Region: guaA; PRK00074 360106003700 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 360106003701 AMP/PPi binding site [chemical binding]; other site 360106003702 candidate oxyanion hole; other site 360106003703 catalytic triad [active] 360106003704 potential glutamine specificity residues [chemical binding]; other site 360106003705 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 360106003706 ATP Binding subdomain [chemical binding]; other site 360106003707 Ligand Binding sites [chemical binding]; other site 360106003708 Dimerization subdomain; other site 360106003709 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 360106003710 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 360106003711 GIY-YIG motif/motif A; other site 360106003712 active site 360106003713 catalytic site [active] 360106003714 putative DNA binding site [nucleotide binding]; other site 360106003715 metal binding site [ion binding]; metal-binding site 360106003716 UvrB/uvrC motif; Region: UVR; pfam02151 360106003717 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 360106003718 Nitrate and nitrite sensing; Region: NIT; pfam08376 360106003719 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 360106003720 dimer interface [polypeptide binding]; other site 360106003721 phosphorylation site [posttranslational modification] 360106003722 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 360106003723 ATP binding site [chemical binding]; other site 360106003724 Mg2+ binding site [ion binding]; other site 360106003725 G-X-G motif; other site 360106003726 Response regulator receiver domain; Region: Response_reg; pfam00072 360106003727 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360106003728 active site 360106003729 phosphorylation site [posttranslational modification] 360106003730 intermolecular recognition site; other site 360106003731 dimerization interface [polypeptide binding]; other site 360106003732 Response regulator receiver domain; Region: Response_reg; pfam00072 360106003733 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360106003734 active site 360106003735 phosphorylation site [posttranslational modification] 360106003736 intermolecular recognition site; other site 360106003737 dimerization interface [polypeptide binding]; other site 360106003738 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3787; cl17897 360106003739 dUTPase; Region: dUTPase_2; pfam08761 360106003740 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 360106003741 active site 360106003742 homodimer interface [polypeptide binding]; other site 360106003743 metal binding site [ion binding]; metal-binding site 360106003744 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 360106003745 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 360106003746 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 360106003747 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 360106003748 Protein of unknown function, DUF485; Region: DUF485; pfam04341 360106003749 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 360106003750 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 360106003751 Na binding site [ion binding]; other site 360106003752 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 360106003753 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 360106003754 methionine sulfoxide reductase B; Provisional; Region: PRK00222 360106003755 SelR domain; Region: SelR; pfam01641 360106003756 F0F1 ATP synthase subunit C; Validated; Region: PRK08482 360106003757 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 360106003758 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 360106003759 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 360106003760 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 360106003761 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 360106003762 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 360106003763 dimer interface [polypeptide binding]; other site 360106003764 active site 360106003765 metal binding site [ion binding]; metal-binding site 360106003766 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 360106003767 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 360106003768 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 360106003769 Na2 binding site [ion binding]; other site 360106003770 putative substrate binding site 1 [chemical binding]; other site 360106003771 Na binding site 1 [ion binding]; other site 360106003772 putative substrate binding site 2 [chemical binding]; other site 360106003773 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 360106003774 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 360106003775 active site 360106003776 catalytic residues [active] 360106003777 metal binding site [ion binding]; metal-binding site 360106003778 homodimer binding site [polypeptide binding]; other site 360106003779 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 360106003780 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 360106003781 carboxyltransferase (CT) interaction site; other site 360106003782 biotinylation site [posttranslational modification]; other site 360106003783 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 360106003784 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 360106003785 active site 360106003786 substrate-binding site [chemical binding]; other site 360106003787 metal-binding site [ion binding] 360106003788 ATP binding site [chemical binding]; other site 360106003789 argininosuccinate lyase; Provisional; Region: PRK00855 360106003790 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 360106003791 active sites [active] 360106003792 tetramer interface [polypeptide binding]; other site 360106003793 FeoA domain; Region: FeoA; pfam04023 360106003794 Nucleoside recognition; Region: Gate; pfam07670 360106003795 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 360106003796 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 360106003797 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 360106003798 Multicopper oxidase; Region: Cu-oxidase; pfam00394 360106003799 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 360106003800 Cache domain; Region: Cache_1; pfam02743 360106003801 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 360106003802 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360106003803 Cache domain; Region: Cache_1; pfam02743 360106003804 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 360106003805 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360106003806 dimer interface [polypeptide binding]; other site 360106003807 putative CheW interface [polypeptide binding]; other site 360106003808 elongation factor G; Reviewed; Region: PRK00007 360106003809 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 360106003810 G1 box; other site 360106003811 putative GEF interaction site [polypeptide binding]; other site 360106003812 GTP/Mg2+ binding site [chemical binding]; other site 360106003813 Switch I region; other site 360106003814 G2 box; other site 360106003815 G3 box; other site 360106003816 Switch II region; other site 360106003817 G4 box; other site 360106003818 G5 box; other site 360106003819 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 360106003820 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 360106003821 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 360106003822 30S ribosomal protein S7; Validated; Region: PRK05302 360106003823 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 360106003824 S17 interaction site [polypeptide binding]; other site 360106003825 S8 interaction site; other site 360106003826 16S rRNA interaction site [nucleotide binding]; other site 360106003827 streptomycin interaction site [chemical binding]; other site 360106003828 23S rRNA interaction site [nucleotide binding]; other site 360106003829 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 360106003830 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 360106003831 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 360106003832 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 360106003833 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 360106003834 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 360106003835 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 360106003836 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 360106003837 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 360106003838 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 360106003839 DNA binding site [nucleotide binding] 360106003840 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 360106003841 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 360106003842 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 360106003843 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 360106003844 RPB11 interaction site [polypeptide binding]; other site 360106003845 RPB12 interaction site [polypeptide binding]; other site 360106003846 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 360106003847 RPB1 interaction site [polypeptide binding]; other site 360106003848 RNA polymerase Rpb2, domain 7; Region: RNA_pol_Rpb2_7; pfam04560 360106003849 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 360106003850 L11 interface [polypeptide binding]; other site 360106003851 putative EF-Tu interaction site [polypeptide binding]; other site 360106003852 putative EF-G interaction site [polypeptide binding]; other site 360106003853 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 360106003854 23S rRNA interface [nucleotide binding]; other site 360106003855 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 360106003856 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 360106003857 mRNA/rRNA interface [nucleotide binding]; other site 360106003858 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 360106003859 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 360106003860 23S rRNA interface [nucleotide binding]; other site 360106003861 L7/L12 interface [polypeptide binding]; other site 360106003862 putative thiostrepton binding site; other site 360106003863 L25 interface [polypeptide binding]; other site 360106003864 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 360106003865 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 360106003866 putative homodimer interface [polypeptide binding]; other site 360106003867 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 360106003868 heterodimer interface [polypeptide binding]; other site 360106003869 homodimer interface [polypeptide binding]; other site 360106003870 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 360106003871 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 360106003872 elongation factor Tu; Reviewed; Region: PRK00049 360106003873 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 360106003874 G1 box; other site 360106003875 GEF interaction site [polypeptide binding]; other site 360106003876 GTP/Mg2+ binding site [chemical binding]; other site 360106003877 Switch I region; other site 360106003878 G2 box; other site 360106003879 G3 box; other site 360106003880 Switch II region; other site 360106003881 G4 box; other site 360106003882 G5 box; other site 360106003883 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 360106003884 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 360106003885 Antibiotic Binding Site [chemical binding]; other site 360106003886 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 360106003887 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 360106003888 E-class dimer interface [polypeptide binding]; other site 360106003889 P-class dimer interface [polypeptide binding]; other site 360106003890 active site 360106003891 Cu2+ binding site [ion binding]; other site 360106003892 Zn2+ binding site [ion binding]; other site 360106003893 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 360106003894 active site 360106003895 dimer interface [polypeptide binding]; other site 360106003896 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 360106003897 putative RNA binding site [nucleotide binding]; other site 360106003898 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 360106003899 homopentamer interface [polypeptide binding]; other site 360106003900 active site 360106003901 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 360106003902 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 360106003903 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 360106003904 EamA-like transporter family; Region: EamA; pfam00892 360106003905 GTP-binding protein Der; Reviewed; Region: PRK00093 360106003906 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 360106003907 G1 box; other site 360106003908 GTP/Mg2+ binding site [chemical binding]; other site 360106003909 Switch I region; other site 360106003910 G2 box; other site 360106003911 Switch II region; other site 360106003912 G3 box; other site 360106003913 G4 box; other site 360106003914 G5 box; other site 360106003915 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 360106003916 G1 box; other site 360106003917 GTP/Mg2+ binding site [chemical binding]; other site 360106003918 Switch I region; other site 360106003919 G2 box; other site 360106003920 G3 box; other site 360106003921 Switch II region; other site 360106003922 G4 box; other site 360106003923 G5 box; other site 360106003924 shikimate kinase; Reviewed; Region: aroK; PRK00131 360106003925 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 360106003926 ADP binding site [chemical binding]; other site 360106003927 magnesium binding site [ion binding]; other site 360106003928 putative shikimate binding site; other site 360106003929 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 360106003930 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 360106003931 active site 360106003932 HIGH motif; other site 360106003933 dimer interface [polypeptide binding]; other site 360106003934 KMSKS motif; other site 360106003935 seryl-tRNA synthetase; Provisional; Region: PRK05431 360106003936 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 360106003937 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 360106003938 dimer interface [polypeptide binding]; other site 360106003939 active site 360106003940 motif 1; other site 360106003941 motif 2; other site 360106003942 motif 3; other site 360106003943 Tetratricopeptide repeat; Region: TPR_9; pfam13371 360106003944 2-isopropylmalate synthase; Validated; Region: PRK00915 360106003945 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 360106003946 active site 360106003947 catalytic residues [active] 360106003948 metal binding site [ion binding]; metal-binding site 360106003949 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 360106003950 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 360106003951 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 360106003952 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 360106003953 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 360106003954 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 360106003955 Walker A motif; other site 360106003956 ATP binding site [chemical binding]; other site 360106003957 Walker B motif; other site 360106003958 arginine finger; other site 360106003959 Peptidase family M41; Region: Peptidase_M41; pfam01434 360106003960 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 360106003961 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 360106003962 S-adenosylmethionine binding site [chemical binding]; other site 360106003963 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 360106003964 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 360106003965 catalytic residues [active] 360106003966 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 360106003967 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 360106003968 putative active site [active] 360106003969 oxyanion strand; other site 360106003970 catalytic triad [active] 360106003971 Cache domain; Region: Cache_1; pfam02743 360106003972 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 360106003973 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 360106003974 NAD(P) binding site [chemical binding]; other site 360106003975 homodimer interface [polypeptide binding]; other site 360106003976 substrate binding site [chemical binding]; other site 360106003977 active site 360106003978 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 360106003979 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 360106003980 inhibitor-cofactor binding pocket; inhibition site 360106003981 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360106003982 catalytic residue [active] 360106003983 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 360106003984 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03815 360106003985 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360106003986 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 360106003987 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 360106003988 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 360106003989 Mg++ binding site [ion binding]; other site 360106003990 putative catalytic motif [active] 360106003991 putative substrate binding site [chemical binding]; other site 360106003992 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 360106003993 phosphoglyceromutase; Provisional; Region: PRK05434 360106003994 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 360106003995 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360106003996 NAD(P) binding site [chemical binding]; other site 360106003997 active site 360106003998 acyl carrier protein; Provisional; Region: acpP; PRK00982 360106003999 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK08439 360106004000 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 360106004001 dimer interface [polypeptide binding]; other site 360106004002 active site 360106004003 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 360106004004 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 360106004005 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 360106004006 Sel1-like repeats; Region: SEL1; smart00671 360106004007 peptide chain release factor 2; Validated; Region: prfB; PRK00578 360106004008 PCRF domain; Region: PCRF; pfam03462 360106004009 RF-1 domain; Region: RF-1; pfam00472 360106004010 pantoate--beta-alanine ligase; Region: panC; TIGR00018 360106004011 Pantoate-beta-alanine ligase; Region: PanC; cd00560 360106004012 active site 360106004013 ATP-binding site [chemical binding]; other site 360106004014 pantoate-binding site; other site 360106004015 HXXH motif; other site 360106004016 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 360106004017 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 360106004018 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 360106004019 FeS/SAM binding site; other site 360106004020 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 360106004021 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 360106004022 Ligand Binding Site [chemical binding]; other site 360106004023 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 360106004024 putative acyl-acceptor binding pocket; other site 360106004025 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 360106004026 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14339 360106004027 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 360106004028 FeS/SAM binding site; other site 360106004029 TRAM domain; Region: TRAM; cl01282 360106004030 transcription elongation factor NusA; Provisional; Region: nusA; PRK12328 360106004031 NusA N-terminal domain; Region: NusA_N; pfam08529 360106004032 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 360106004033 RNA binding site [nucleotide binding]; other site 360106004034 homodimer interface [polypeptide binding]; other site 360106004035 NusA-like KH domain; Region: KH_5; pfam13184 360106004036 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 360106004037 G-X-X-G motif; other site 360106004038 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 360106004039 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 360106004040 putative trimer interface [polypeptide binding]; other site 360106004041 putative CoA binding site [chemical binding]; other site 360106004042 Bacterial sugar transferase; Region: Bac_transf; pfam02397 360106004043 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 360106004044 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360106004045 putative ADP-binding pocket [chemical binding]; other site 360106004046 Oligosaccharyl transferase STT3 subunit; Region: STT3; pfam02516 360106004047 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360106004048 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 360106004049 putative ADP-binding pocket [chemical binding]; other site 360106004050 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360106004051 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 360106004052 putative ADP-binding pocket [chemical binding]; other site 360106004053 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360106004054 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 360106004055 putative ADP-binding pocket [chemical binding]; other site 360106004056 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 360106004057 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 360106004058 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 360106004059 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 360106004060 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 360106004061 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 360106004062 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 360106004063 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 360106004064 Ligand binding site; other site 360106004065 Putative Catalytic site; other site 360106004066 DXD motif; other site 360106004067 Glucosyl transferase GtrII; Region: Glucos_trans_II; pfam14264 360106004068 GtrA-like protein; Region: GtrA; pfam04138 360106004069 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 360106004070 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 360106004071 NAD binding site [chemical binding]; other site 360106004072 homodimer interface [polypeptide binding]; other site 360106004073 active site 360106004074 substrate binding site [chemical binding]; other site 360106004075 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 360106004076 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 360106004077 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 360106004078 S-adenosylmethionine binding site [chemical binding]; other site 360106004079 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 360106004080 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 360106004081 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 360106004082 DNA ligase; Provisional; Region: PRK09125 360106004083 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 360106004084 DNA binding site [nucleotide binding] 360106004085 active site 360106004086 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 360106004087 DNA binding site [nucleotide binding] 360106004088 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 360106004089 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 360106004090 putative NAD(P) binding site [chemical binding]; other site 360106004091 active site 360106004092 putative substrate binding site [chemical binding]; other site 360106004093 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 360106004094 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 360106004095 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 360106004096 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 360106004097 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 360106004098 active site 360106004099 catalytic site [active] 360106004100 substrate binding site [chemical binding]; other site 360106004101 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 360106004102 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 360106004103 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 360106004104 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 360106004105 putative active site [active] 360106004106 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 360106004107 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 360106004108 putative acyl-acceptor binding pocket; other site 360106004109 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 360106004110 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 360106004111 putative metal binding site; other site 360106004112 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 360106004113 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 360106004114 putative active site [active] 360106004115 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 360106004116 putative active site [active] 360106004117 putative metal binding site [ion binding]; other site 360106004118 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360106004119 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 360106004120 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 360106004121 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 360106004122 putative active site [active] 360106004123 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360106004124 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 360106004125 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 360106004126 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 360106004127 putative active site [active] 360106004128 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 360106004129 dimer interface [polypeptide binding]; other site 360106004130 active site 360106004131 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 360106004132 aspartate racemase; Region: asp_race; TIGR00035 360106004133 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 360106004134 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 360106004135 putative ribose interaction site [chemical binding]; other site 360106004136 putative ADP binding site [chemical binding]; other site 360106004137 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 360106004138 active site 360106004139 nucleotide binding site [chemical binding]; other site 360106004140 HIGH motif; other site 360106004141 KMSKS motif; other site 360106004142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360106004143 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 360106004144 NAD(P) binding site [chemical binding]; other site 360106004145 active site 360106004146 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 360106004147 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 360106004148 active site 360106004149 motif I; other site 360106004150 motif II; other site 360106004151 Cytochrome c; Region: Cytochrom_C; cl11414 360106004152 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 360106004153 catalytic triad [active] 360106004154 putative active site [active] 360106004155 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 360106004156 Autotransporter beta-domain; Region: Autotransporter; smart00869 360106004157 Cytochrome c; Region: Cytochrom_C; cl11414 360106004158 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 360106004159 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 360106004160 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 360106004161 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 360106004162 metal-binding site [ion binding] 360106004163 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 360106004164 Soluble P-type ATPase [General function prediction only]; Region: COG4087 360106004165 transcription termination factor Rho; Provisional; Region: rho; PRK09376 360106004166 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 360106004167 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 360106004168 RNA binding site [nucleotide binding]; other site 360106004169 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 360106004170 multimer interface [polypeptide binding]; other site 360106004171 Walker A motif; other site 360106004172 ATP binding site [chemical binding]; other site 360106004173 Walker B motif; other site 360106004174 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08451 360106004175 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 360106004176 Walker A motif; other site 360106004177 ATP binding site [chemical binding]; other site 360106004178 Walker B motif; other site 360106004179 arginine finger; other site 360106004180 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 360106004181 non-specific DNA binding site [nucleotide binding]; other site 360106004182 salt bridge; other site 360106004183 sequence-specific DNA binding site [nucleotide binding]; other site 360106004184 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08415 360106004185 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 360106004186 NAD binding site [chemical binding]; other site 360106004187 homotetramer interface [polypeptide binding]; other site 360106004188 homodimer interface [polypeptide binding]; other site 360106004189 substrate binding site [chemical binding]; other site 360106004190 active site 360106004191 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 360106004192 triosephosphate isomerase; Provisional; Region: PRK14565 360106004193 substrate binding site [chemical binding]; other site 360106004194 dimer interface [polypeptide binding]; other site 360106004195 catalytic triad [active] 360106004196 Phosphoglycerate kinase; Region: PGK; pfam00162 360106004197 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 360106004198 substrate binding site [chemical binding]; other site 360106004199 hinge regions; other site 360106004200 ADP binding site [chemical binding]; other site 360106004201 catalytic site [active] 360106004202 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 360106004203 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 360106004204 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 360106004205 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 360106004206 nicotinate (nicotinamide) nucleotide adenylyltransferase; Region: TIGR00482 360106004207 active site 360106004208 (T/H)XGH motif; other site 360106004209 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 360106004210 Predicted membrane protein [Function unknown]; Region: COG2855 360106004211 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 360106004212 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360106004213 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 360106004214 dimerization interface [polypeptide binding]; other site 360106004215 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 360106004216 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 360106004217 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 360106004218 active site 360106004219 HIGH motif; other site 360106004220 KMSK motif region; other site 360106004221 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 360106004222 tRNA binding surface [nucleotide binding]; other site 360106004223 anticodon binding site; other site 360106004224 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 360106004225 twin arginine translocase protein A; Provisional; Region: tatA; PRK00575 360106004226 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 360106004227 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 360106004228 catalytic site [active] 360106004229 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: MDN1; COG5271 360106004230 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 360106004231 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 360106004232 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 360106004233 N-terminal plug; other site 360106004234 ligand-binding site [chemical binding]; other site 360106004235 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 360106004236 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 360106004237 Walker A/P-loop; other site 360106004238 ATP binding site [chemical binding]; other site 360106004239 Q-loop/lid; other site 360106004240 ABC transporter signature motif; other site 360106004241 Walker B; other site 360106004242 D-loop; other site 360106004243 H-loop/switch region; other site 360106004244 elongation factor Ts; Provisional; Region: tsf; PRK09377 360106004245 UBA/TS-N domain; Region: UBA; pfam00627 360106004246 Elongation factor TS; Region: EF_TS; pfam00889 360106004247 Elongation factor TS; Region: EF_TS; pfam00889 360106004248 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 360106004249 rRNA interaction site [nucleotide binding]; other site 360106004250 S8 interaction site; other site 360106004251 putative laminin-1 binding site; other site 360106004252 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 360106004253 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 360106004254 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 360106004255 Lumazine binding domain; Region: Lum_binding; pfam00677 360106004256 Lumazine binding domain; Region: Lum_binding; pfam00677 360106004257 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 360106004258 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 360106004259 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 360106004260 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 360106004261 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 360106004262 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 360106004263 [2Fe-2S] cluster binding site [ion binding]; other site 360106004264 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 360106004265 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 360106004266 intrachain domain interface; other site 360106004267 interchain domain interface [polypeptide binding]; other site 360106004268 heme bH binding site [chemical binding]; other site 360106004269 Qi binding site; other site 360106004270 heme bL binding site [chemical binding]; other site 360106004271 Qo binding site; other site 360106004272 Cytochrome b(C-terminus)/b6/petD: 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_C; cl00193 360106004273 intrachain domain interface; other site 360106004274 Qo binding site; other site 360106004275 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 360106004276 Cytochrome c; Region: Cytochrom_C; pfam00034 360106004277 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 360106004278 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 360106004279 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 360106004280 FeS/SAM binding site; other site 360106004281 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 360106004282 substrate binding site [chemical binding]; other site 360106004283 active site 360106004284 Predicted membrane protein [Function unknown]; Region: COG2862 360106004285 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 360106004286 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 360106004287 Response regulator receiver domain; Region: Response_reg; pfam00072 360106004288 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360106004289 active site 360106004290 phosphorylation site [posttranslational modification] 360106004291 intermolecular recognition site; other site 360106004292 dimerization interface [polypeptide binding]; other site 360106004293 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 360106004294 Walker A motif; other site 360106004295 ATP binding site [chemical binding]; other site 360106004296 Walker B motif; other site 360106004297 arginine finger; other site 360106004298 LPP20 lipoprotein; Region: LPP20; cl15824 360106004299 DNA gyrase subunit A; Validated; Region: PRK05560 360106004300 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 360106004301 CAP-like domain; other site 360106004302 active site 360106004303 primary dimer interface [polypeptide binding]; other site 360106004304 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360106004305 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360106004306 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360106004307 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360106004308 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360106004309 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; pfam02522 360106004310 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360106004311 Coenzyme A binding pocket [chemical binding]; other site 360106004312 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 360106004313 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 360106004314 acyl-activating enzyme (AAE) consensus motif; other site 360106004315 AMP binding site [chemical binding]; other site 360106004316 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 360106004317 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360106004318 active site 360106004319 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 360106004320 active site 1 [active] 360106004321 dimer interface [polypeptide binding]; other site 360106004322 hexamer interface [polypeptide binding]; other site 360106004323 active site 2 [active] 360106004324 GTP-binding protein LepA; Provisional; Region: PRK05433 360106004325 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 360106004326 G1 box; other site 360106004327 putative GEF interaction site [polypeptide binding]; other site 360106004328 GTP/Mg2+ binding site [chemical binding]; other site 360106004329 Switch I region; other site 360106004330 G2 box; other site 360106004331 G3 box; other site 360106004332 Switch II region; other site 360106004333 G4 box; other site 360106004334 G5 box; other site 360106004335 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 360106004336 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 360106004337 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 360106004338 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 360106004339 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 360106004340 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360106004341 active site 360106004342 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 360106004343 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 360106004344 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 360106004345 dihydroorotase; Validated; Region: pyrC; PRK09357 360106004346 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 360106004347 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 360106004348 active site 360106004349 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 360106004350 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 360106004351 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 360106004352 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 360106004353 Ligand Binding Site [chemical binding]; other site 360106004354 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 360106004355 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 360106004356 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 360106004357 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 360106004358 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 360106004359 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360106004360 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 360106004361 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 360106004362 active site 360106004363 dimer interface [polypeptide binding]; other site 360106004364 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 360106004365 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 360106004366 active site 360106004367 FMN binding site [chemical binding]; other site 360106004368 substrate binding site [chemical binding]; other site 360106004369 3Fe-4S cluster binding site [ion binding]; other site 360106004370 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 360106004371 domain interface; other site 360106004372 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 360106004373 catalytic motif [active] 360106004374 Zn binding site [ion binding]; other site 360106004375 RibD C-terminal domain; Region: RibD_C; cl17279 360106004376 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 360106004377 Sm and related proteins; Region: Sm_like; cl00259 360106004378 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 360106004379 putative oligomer interface [polypeptide binding]; other site 360106004380 putative RNA binding site [nucleotide binding]; other site 360106004381 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 360106004382 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 360106004383 translation initiation factor IF-2; Region: IF-2; TIGR00487 360106004384 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 360106004385 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 360106004386 G1 box; other site 360106004387 putative GEF interaction site [polypeptide binding]; other site 360106004388 GTP/Mg2+ binding site [chemical binding]; other site 360106004389 Switch I region; other site 360106004390 G2 box; other site 360106004391 G3 box; other site 360106004392 Switch II region; other site 360106004393 G4 box; other site 360106004394 G5 box; other site 360106004395 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 360106004396 Translation-initiation factor 2; Region: IF-2; pfam11987 360106004397 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 360106004398 Protein of unknown function (DUF448); Region: DUF448; pfam04296 360106004399 putative RNA binding cleft [nucleotide binding]; other site 360106004400 homoserine kinase; Provisional; Region: PRK01212 360106004401 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 360106004402 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 360106004403 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 360106004404 hypothetical protein; Provisional; Region: PRK10281 360106004405 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 360106004406 Peptidase family M23; Region: Peptidase_M23; pfam01551 360106004407 prephenate dehydrogenase; Validated; Region: PRK08507 360106004408 Prephenate dehydrogenase; Region: PDH; pfam02153 360106004409 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 360106004410 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 360106004411 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 360106004412 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 360106004413 Surface antigen; Region: Bac_surface_Ag; pfam01103 360106004414 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 360106004415 MOSC domain; Region: MOSC; pfam03473 360106004416 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 360106004417 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 360106004418 tandem repeat interface [polypeptide binding]; other site 360106004419 oligomer interface [polypeptide binding]; other site 360106004420 active site residues [active] 360106004421 chlorohydrolase; Provisional; Region: PRK08418 360106004422 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 360106004423 active site 360106004424 Dehydroquinase class II; Region: DHquinase_II; pfam01220 360106004425 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 360106004426 trimer interface [polypeptide binding]; other site 360106004427 active site 360106004428 dimer interface [polypeptide binding]; other site 360106004429 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 360106004430 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 360106004431 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 360106004432 active site 360106004433 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 360106004434 catalytic center binding site [active] 360106004435 ATP binding site [chemical binding]; other site 360106004436 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 360106004437 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 360106004438 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 360106004439 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 360106004440 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 360106004441 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 360106004442 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 360106004443 DNA binding residues [nucleotide binding] 360106004444 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 360106004445 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 360106004446 flagellar motor switch protein FliY; Validated; Region: PRK08432 360106004447 flagellar motor switch protein FliN; Region: fliN; TIGR02480 360106004448 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 360106004449 Ligand Binding Site [chemical binding]; other site 360106004450 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 360106004451 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 360106004452 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 360106004453 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 360106004454 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 360106004455 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 360106004456 Tetratricopeptide repeat; Region: TPR_16; pfam13432 360106004457 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 360106004458 TPR motif; other site 360106004459 binding surface 360106004460 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 360106004461 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 360106004462 ligand binding site [chemical binding]; other site 360106004463 translocation protein TolB; Provisional; Region: tolB; PRK04043 360106004464 TonB C terminal; Region: TonB_2; pfam13103 360106004465 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 360106004466 TolR protein; Region: tolR; TIGR02801 360106004467 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 360106004468 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 360106004469 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 360106004470 gamma subunit interface [polypeptide binding]; other site 360106004471 epsilon subunit interface [polypeptide binding]; other site 360106004472 LBP interface [polypeptide binding]; other site 360106004473 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 360106004474 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 360106004475 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 360106004476 alpha subunit interaction interface [polypeptide binding]; other site 360106004477 Walker A motif; other site 360106004478 ATP binding site [chemical binding]; other site 360106004479 Walker B motif; other site 360106004480 inhibitor binding site; inhibition site 360106004481 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 360106004482 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 360106004483 core domain interface [polypeptide binding]; other site 360106004484 delta subunit interface [polypeptide binding]; other site 360106004485 epsilon subunit interface [polypeptide binding]; other site 360106004486 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 360106004487 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 360106004488 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 360106004489 beta subunit interaction interface [polypeptide binding]; other site 360106004490 Walker A motif; other site 360106004491 ATP binding site [chemical binding]; other site 360106004492 Walker B motif; other site 360106004493 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 360106004494 F0F1 ATP synthase subunit delta; Validated; Region: PRK08474 360106004495 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 360106004496 F0F1 ATP synthase subunit B; Validated; Region: PRK08475 360106004497 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 360106004498 F0F1 ATP synthase subunit B'; Validated; Region: PRK08476 360106004499 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 360106004500 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 360106004501 ParB-like nuclease domain; Region: ParB; smart00470 360106004502 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 360106004503 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 360106004504 P-loop; other site 360106004505 Magnesium ion binding site [ion binding]; other site 360106004506 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 360106004507 Magnesium ion binding site [ion binding]; other site 360106004508 biotin--protein ligase; Provisional; Region: PRK08477 360106004509 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 360106004510 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 360106004511 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 360106004512 putative active site [active] 360106004513 substrate binding site [chemical binding]; other site 360106004514 putative cosubstrate binding site; other site 360106004515 catalytic site [active] 360106004516 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 360106004517 substrate binding site [chemical binding]; other site 360106004518 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 360106004519 nucleotide binding site [chemical binding]; other site 360106004520 homotetrameric interface [polypeptide binding]; other site 360106004521 putative phosphate binding site [ion binding]; other site 360106004522 putative allosteric binding site; other site 360106004523 GTPase CgtA; Reviewed; Region: obgE; PRK12299 360106004524 GTP1/OBG; Region: GTP1_OBG; pfam01018 360106004525 Obg GTPase; Region: Obg; cd01898 360106004526 G1 box; other site 360106004527 GTP/Mg2+ binding site [chemical binding]; other site 360106004528 Switch I region; other site 360106004529 G2 box; other site 360106004530 G3 box; other site 360106004531 Switch II region; other site 360106004532 G4 box; other site 360106004533 G5 box; other site 360106004534 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 360106004535 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 360106004536 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 360106004537 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 360106004538 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 360106004539 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 360106004540 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 360106004541 molybdopterin cofactor binding site; other site 360106004542 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 360106004543 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 360106004544 selenocysteine synthase; Provisional; Region: PRK04311 360106004545 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 360106004546 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360106004547 catalytic residue [active] 360106004548 selenocysteine-specific elongation factor SelB; Region: selB; TIGR00475 360106004549 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 360106004550 G1 box; other site 360106004551 GTP/Mg2+ binding site [chemical binding]; other site 360106004552 G2 box; other site 360106004553 Switch I region; other site 360106004554 G3 box; other site 360106004555 Switch II region; other site 360106004556 G4 box; other site 360106004557 G5 box; other site 360106004558 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 360106004559 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 360106004560 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 360106004561 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 360106004562 ligand binding site; other site 360106004563 tetramer interface; other site 360106004564 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 360106004565 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 360106004566 Metal-binding active site; metal-binding site 360106004567 AP (apurinic/apyrimidinic) site pocket; other site 360106004568 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 360106004569 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 360106004570 Methyltransferase domain; Region: Methyltransf_31; pfam13847 360106004571 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 360106004572 S-adenosylmethionine binding site [chemical binding]; other site 360106004573 Methyltransferase domain; Region: Methyltransf_23; pfam13489 360106004574 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 360106004575 S-adenosylmethionine binding site [chemical binding]; other site 360106004576 pseudaminic acid synthase; Region: PseI; TIGR03586 360106004577 NeuB family; Region: NeuB; pfam03102 360106004578 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 360106004579 NeuB binding interface [polypeptide binding]; other site 360106004580 putative substrate binding site [chemical binding]; other site 360106004581 glutamate dehydrogenase; Provisional; Region: PRK09414 360106004582 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 360106004583 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 360106004584 NAD(P) binding site [chemical binding]; other site 360106004585 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 360106004586 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360106004587 active site 360106004588 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 360106004589 Malic enzyme, N-terminal domain; Region: malic; pfam00390 360106004590 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 360106004591 putative NAD(P) binding site [chemical binding]; other site 360106004592 Transcriptional regulators [Transcription]; Region: MarR; COG1846 360106004593 MarR family; Region: MarR_2; pfam12802 360106004594 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 360106004595 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 360106004596 active site 360106004597 HIGH motif; other site 360106004598 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 360106004599 active site 360106004600 KMSKS motif; other site 360106004601 SurA N-terminal domain; Region: SurA_N; pfam09312 360106004602 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 360106004603 biotin carboxylase; Validated; Region: PRK08462 360106004604 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 360106004605 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 360106004606 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 360106004607 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 360106004608 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 360106004609 carboxyltransferase (CT) interaction site; other site 360106004610 biotinylation site [posttranslational modification]; other site 360106004611 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 360106004612 trimer interface [polypeptide binding]; other site 360106004613 active site 360106004614 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 360106004615 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 360106004616 inhibitor-cofactor binding pocket; inhibition site 360106004617 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360106004618 catalytic residue [active] 360106004619 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 360106004620 Cysteine-rich domain; Region: CCG; pfam02754 360106004621 Cysteine-rich domain; Region: CCG; pfam02754 360106004622 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 360106004623 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 360106004624 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 360106004625 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 360106004626 FeS/SAM binding site; other site 360106004627 HemN C-terminal domain; Region: HemN_C; pfam06969 360106004628 Protein of unknown function (DUF2603); Region: DUF2603; pfam10788 360106004629 ornithine carbamoyltransferase; Provisional; Region: PRK00779 360106004630 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 360106004631 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 360106004632 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 360106004633 dimer interface [polypeptide binding]; other site 360106004634 active site 360106004635 Schiff base residues; other site 360106004636 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 360106004637 dimerization interface [polypeptide binding]; other site 360106004638 active site 360106004639 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 360106004640 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; cl17726 360106004641 M48 family peptidase; Provisional; Region: PRK03001 360106004642 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 360106004643 alanine racemase; Reviewed; Region: alr; PRK00053 360106004644 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360106004645 catalytic residue [active] 360106004646 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 360106004647 Protein of unknown function (DUF461); Region: DUF461; pfam04314 360106004648 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 360106004649 Radical SAM superfamily; Region: Radical_SAM; pfam04055 360106004650 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 360106004651 FeS/SAM binding site; other site 360106004652 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 360106004653 Radical SAM superfamily; Region: Radical_SAM; pfam04055 360106004654 FeS/SAM binding site; other site 360106004655 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 360106004656 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 360106004657 TPP-binding site [chemical binding]; other site 360106004658 dimer interface [polypeptide binding]; other site 360106004659 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 360106004660 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 360106004661 PYR/PP interface [polypeptide binding]; other site 360106004662 dimer interface [polypeptide binding]; other site 360106004663 TPP binding site [chemical binding]; other site 360106004664 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 360106004665 Methyltransferase domain; Region: Methyltransf_31; pfam13847 360106004666 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 360106004667 S-adenosylmethionine binding site [chemical binding]; other site 360106004668 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 360106004669 S-adenosylmethionine binding site [chemical binding]; other site 360106004670 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 360106004671 Radical SAM superfamily; Region: Radical_SAM; pfam04055 360106004672 FeS/SAM binding site; other site 360106004673 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 360106004674 Radical SAM superfamily; Region: Radical_SAM; pfam04055 360106004675 FeS/SAM binding site; other site 360106004676 Methyltransferase domain; Region: Methyltransf_23; pfam13489 360106004677 Methyltransferase domain; Region: Methyltransf_18; pfam12847 360106004678 S-adenosylmethionine binding site [chemical binding]; other site 360106004679 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 360106004680 Methyltransferase domain; Region: Methyltransf_23; pfam13489 360106004681 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 360106004682 S-adenosylmethionine binding site [chemical binding]; other site 360106004683 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 360106004684 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 360106004685 classical (c) SDRs; Region: SDR_c; cd05233 360106004686 NAD(P) binding site [chemical binding]; other site 360106004687 active site 360106004688 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 360106004689 FeS/SAM binding site; other site 360106004690 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 360106004691 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 360106004692 UDP-galactopyranose mutase; Region: UDP-GALP_mutase; TIGR00031 360106004693 UDP-galactopyranose mutase; Region: GLF; pfam03275 360106004694 Biopterin-dependent aromatic amino acid hydroxylase; a family of non-heme, iron(II)-dependent enzymes that includes prokaryotic and eukaryotic phenylalanine-4-hydroxylase (PheOH), eukaryotic tyrosine hydroxylase (TyrOH) and eukaryotic tryptophan...; Region: arom_aa_hydroxylase; cl01244 360106004695 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 360106004696 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 360106004697 putative active site [active] 360106004698 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 360106004699 S-adenosylmethionine binding site [chemical binding]; other site 360106004700 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 360106004701 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 360106004702 active site 360106004703 dimer interface [polypeptide binding]; other site 360106004704 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 360106004705 Ligand Binding Site [chemical binding]; other site 360106004706 Molecular Tunnel; other site 360106004707 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360106004708 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 360106004709 putative ADP-binding pocket [chemical binding]; other site 360106004710 Methyltransferase domain; Region: Methyltransf_23; pfam13489 360106004711 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 360106004712 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360106004713 putative ADP-binding pocket [chemical binding]; other site 360106004714 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 360106004715 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 360106004716 active site 360106004717 dimer interface [polypeptide binding]; other site 360106004718 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 360106004719 Ligand Binding Site [chemical binding]; other site 360106004720 Molecular Tunnel; other site 360106004721 Protein of unknown function (DUF354); Region: DUF354; pfam04007 360106004722 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 360106004723 S-adenosylmethionine binding site [chemical binding]; other site 360106004724 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 360106004725 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 360106004726 mutatrotase, YjhT family; Region: muta_rot_YjhT; TIGR03547 360106004727 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 360106004728 adenylylsulfate kinase; Provisional; Region: PRK05541 360106004729 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 360106004730 active site 360106004731 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 360106004732 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 360106004733 S-adenosylmethionine binding site [chemical binding]; other site 360106004734 hypothetical protein; Provisional; Region: PRK05849 360106004735 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 360106004736 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 360106004737 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 360106004738 conserved cys residue [active] 360106004739 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 360106004740 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 360106004741 active site 360106004742 metal-binding site 360106004743 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 360106004744 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 360106004745 NAD(P) binding site [chemical binding]; other site 360106004746 homodimer interface [polypeptide binding]; other site 360106004747 substrate binding site [chemical binding]; other site 360106004748 active site 360106004749 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 360106004750 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 360106004751 flagellin B; Provisional; Region: PRK13588 360106004752 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 360106004753 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 360106004754 flagellin B; Provisional; Region: PRK13588 360106004755 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 360106004756 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 360106004757 Methyltransferase domain; Region: Methyltransf_31; pfam13847 360106004758 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 360106004759 S-adenosylmethionine binding site [chemical binding]; other site 360106004760 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 360106004761 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 360106004762 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 360106004763 Domain of unknown function DUF20; Region: UPF0118; pfam01594 360106004764 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 360106004765 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 360106004766 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 360106004767 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 360106004768 TrkA-N domain; Region: TrkA_N; pfam02254 360106004769 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 360106004770 Aspartase; Region: Aspartase; cd01357 360106004771 active sites [active] 360106004772 tetramer interface [polypeptide binding]; other site 360106004773 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 360106004774 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 360106004775 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 360106004776 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360106004777 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 360106004778 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 360106004779 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 360106004780 N-terminal plug; other site 360106004781 ligand-binding site [chemical binding]; other site 360106004782 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 360106004783 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 360106004784 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 360106004785 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 360106004786 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 360106004787 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 360106004788 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 360106004789 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 360106004790 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 360106004791 dimer interface [polypeptide binding]; other site 360106004792 conserved gate region; other site 360106004793 putative PBP binding loops; other site 360106004794 ABC-ATPase subunit interface; other site 360106004795 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 360106004796 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 360106004797 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360106004798 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 360106004799 Walker A/P-loop; other site 360106004800 ATP binding site [chemical binding]; other site 360106004801 Q-loop/lid; other site 360106004802 ABC transporter signature motif; other site 360106004803 Walker B; other site 360106004804 D-loop; other site 360106004805 H-loop/switch region; other site 360106004806 arsenical pump membrane protein; Provisional; Region: PRK15445 360106004807 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 360106004808 transmembrane helices; other site 360106004809 Helix-turn-helix domain; Region: HTH_17; cl17695 360106004810 hypothetical protein; Provisional; Region: PRK04081 360106004811 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 360106004812 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 360106004813 Flavoprotein; Region: Flavoprotein; pfam02441 360106004814 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 360106004815 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 360106004816 putative ligand binding site [chemical binding]; other site 360106004817 putative NAD binding site [chemical binding]; other site 360106004818 catalytic site [active] 360106004819 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 360106004820 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 360106004821 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 360106004822 coproporphyrinogen III oxidase; Provisional; Region: PRK08629 360106004823 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 360106004824 FeS/SAM binding site; other site 360106004825 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 360106004826 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 360106004827 Walker A motif; other site 360106004828 ATP binding site [chemical binding]; other site 360106004829 Walker B motif; other site 360106004830 arginine finger; other site 360106004831 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 360106004832 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 360106004833 acyl-activating enzyme (AAE) consensus motif; other site 360106004834 active site 360106004835 AMP binding site [chemical binding]; other site 360106004836 CoA binding site [chemical binding]; other site 360106004837 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 360106004838 endonuclease IV; Provisional; Region: PRK01060 360106004839 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 360106004840 AP (apurinic/apyrimidinic) site pocket; other site 360106004841 DNA interaction; other site 360106004842 Metal-binding active site; metal-binding site 360106004843 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cl13853 360106004844 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 360106004845 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 360106004846 CRISPR-associated protein; Region: TIGR03986 360106004847 RAMP superfamily; Region: RAMPs; pfam03787 360106004848 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 360106004849 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 360106004850 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 360106004851 active site 360106004852 substrate binding site [chemical binding]; other site 360106004853 cosubstrate binding site; other site 360106004854 catalytic site [active] 360106004855 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 360106004856 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 360106004857 putative substrate binding site [chemical binding]; other site 360106004858 putative ATP binding site [chemical binding]; other site 360106004859 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 360106004860 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 360106004861 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 360106004862 Walker A motif; other site 360106004863 ATP binding site [chemical binding]; other site 360106004864 Walker B motif; other site 360106004865 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 360106004866 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 360106004867 active site 360106004868 catalytic residues [active] 360106004869 metal binding site [ion binding]; metal-binding site 360106004870 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360106004871 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360106004872 metal binding site [ion binding]; metal-binding site 360106004873 active site 360106004874 I-site; other site 360106004875 Clp protease; Region: CLP_protease; pfam00574 360106004876 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 360106004877 oligomer interface [polypeptide binding]; other site 360106004878 active site residues [active] 360106004879 trigger factor; Provisional; Region: tig; PRK01490 360106004880 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 360106004881 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 360106004882 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 360106004883 homodecamer interface [polypeptide binding]; other site 360106004884 GTP cyclohydrolase I; Provisional; Region: PLN03044 360106004885 active site 360106004886 putative catalytic site residues [active] 360106004887 zinc binding site [ion binding]; other site 360106004888 GTP-CH-I/GFRP interaction surface; other site 360106004889 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08472 360106004890 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 360106004891 Walker A motif/ATP binding site; other site 360106004892 Walker B motif; other site 360106004893 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 360106004894 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 360106004895 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360106004896 catalytic residue [active] 360106004897 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 360106004898 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 360106004899 trimerization site [polypeptide binding]; other site 360106004900 active site 360106004901 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 360106004902 NifU-like domain; Region: NifU; cl00484 360106004903 Cache domain; Region: Cache_1; pfam02743 360106004904 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 360106004905 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360106004906 dimer interface [polypeptide binding]; other site 360106004907 putative CheW interface [polypeptide binding]; other site 360106004908 Hemerythrin; Region: Hemerythrin; cd12107 360106004909 Fe binding site [ion binding]; other site 360106004910 SprT homologues; Region: SprT; cl01182 360106004911 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 360106004912 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 360106004913 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 360106004914 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 360106004915 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 360106004916 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 360106004917 active site 360106004918 dimer interface [polypeptide binding]; other site 360106004919 motif 1; other site 360106004920 motif 2; other site 360106004921 motif 3; other site 360106004922 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 360106004923 anticodon binding site; other site 360106004924 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 360106004925 Helix-turn-helix domain; Region: HTH_17; cl17695 360106004926 integrase; Provisional; Region: PRK09692 360106004927 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 360106004928 active site 360106004929 Int/Topo IB signature motif; other site 360106004930 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 360106004931 TM2 domain; Region: TM2; pfam05154 360106004932 Short C-terminal domain; Region: SHOCT; pfam09851 360106004933 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 360106004934 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14324 360106004935 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 360106004936 active site 360106004937 substrate binding site [chemical binding]; other site 360106004938 metal binding site [ion binding]; metal-binding site 360106004939 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 360106004940 peptide chain release factor 1; Validated; Region: prfA; PRK00591 360106004941 This domain is found in peptide chain release factors; Region: PCRF; smart00937 360106004942 RF-1 domain; Region: RF-1; pfam00472 360106004943 Protein of unknown function (DUF419); Region: DUF419; cl15265 360106004944 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 360106004945 Isochorismatase family; Region: Isochorismatase; pfam00857 360106004946 catalytic triad [active] 360106004947 conserved cis-peptide bond; other site 360106004948 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 360106004949 putative catalytic site [active] 360106004950 putative metal binding site [ion binding]; other site 360106004951 putative phosphate binding site [ion binding]; other site 360106004952 putative metal dependent hydrolase; Provisional; Region: PRK11598 360106004953 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 360106004954 Sulfatase; Region: Sulfatase; pfam00884 360106004955 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 360106004956 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 360106004957 putative Zn2+ binding site [ion binding]; other site 360106004958 putative DNA binding site [nucleotide binding]; other site 360106004959 Predicted membrane protein [Function unknown]; Region: COG1971 360106004960 Domain of unknown function DUF; Region: DUF204; pfam02659 360106004961 Domain of unknown function DUF; Region: DUF204; pfam02659 360106004962 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 360106004963 EamA-like transporter family; Region: EamA; pfam00892 360106004964 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 360106004965 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 360106004966 ABC-ATPase subunit interface; other site 360106004967 dimer interface [polypeptide binding]; other site 360106004968 putative PBP binding regions; other site 360106004969 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 360106004970 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 360106004971 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 360106004972 High-affinity nickel-transport protein; Region: NicO; cl00964 360106004973 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 360106004974 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 360106004975 intersubunit interface [polypeptide binding]; other site 360106004976 YodA lipocalin-like domain; Region: YodA; cl01365 360106004977 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 360106004978 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 360106004979 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 360106004980 metal binding site 2 [ion binding]; metal-binding site 360106004981 putative DNA binding helix; other site 360106004982 metal binding site 1 [ion binding]; metal-binding site 360106004983 structural Zn2+ binding site [ion binding]; other site 360106004984 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 360106004985 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 360106004986 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 360106004987 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 360106004988 PAS domain; Region: PAS_9; pfam13426 360106004989 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360106004990 metal binding site [ion binding]; metal-binding site 360106004991 active site 360106004992 I-site; other site 360106004993 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 360106004994 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 360106004995 active site clefts [active] 360106004996 zinc binding site [ion binding]; other site 360106004997 dimer interface [polypeptide binding]; other site 360106004998 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 360106004999 Mechanosensitive ion channel; Region: MS_channel; pfam00924 360106005000 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 360106005001 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 360106005002 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 360106005003 Tetramer interface [polypeptide binding]; other site 360106005004 active site 360106005005 FMN-binding site [chemical binding]; other site 360106005006 ribonuclease III; Reviewed; Region: rnc; PRK00102 360106005007 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 360106005008 dimerization interface [polypeptide binding]; other site 360106005009 active site 360106005010 metal binding site [ion binding]; metal-binding site 360106005011 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 360106005012 dsRNA binding site [nucleotide binding]; other site 360106005013 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 360106005014 RNA/DNA hybrid binding site [nucleotide binding]; other site 360106005015 active site 360106005016 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 360106005017 TPR motif; other site 360106005018 binding surface 360106005019 DNA primase; Validated; Region: dnaG; PRK05667 360106005020 CHC2 zinc finger; Region: zf-CHC2; pfam01807 360106005021 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 360106005022 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 360106005023 active site 360106005024 metal binding site [ion binding]; metal-binding site 360106005025 interdomain interaction site; other site 360106005026 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 360106005027 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 360106005028 Ligand Binding Site [chemical binding]; other site 360106005029 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 360106005030 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 360106005031 Predicted permease [General function prediction only]; Region: COG2056 360106005032 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 360106005033 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 360106005034 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 360106005035 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 360106005036 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 360106005037 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 360106005038 active site 360106005039 metal binding site [ion binding]; metal-binding site 360106005040 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 360106005041 CTP synthetase; Validated; Region: pyrG; PRK05380 360106005042 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 360106005043 Catalytic site [active] 360106005044 active site 360106005045 UTP binding site [chemical binding]; other site 360106005046 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 360106005047 active site 360106005048 putative oxyanion hole; other site 360106005049 catalytic triad [active] 360106005050 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 360106005051 DHH family; Region: DHH; pfam01368 360106005052 DHHA1 domain; Region: DHHA1; pfam02272 360106005053 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 360106005054 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 360106005055 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 360106005056 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 360106005057 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 360106005058 Walker A/P-loop; other site 360106005059 ATP binding site [chemical binding]; other site 360106005060 Q-loop/lid; other site 360106005061 ABC transporter signature motif; other site 360106005062 Walker B; other site 360106005063 D-loop; other site 360106005064 H-loop/switch region; other site 360106005065 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 360106005066 heme oxygenase, HugZ family; Region: heme_ox_HugZ; TIGR04109 360106005067 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 360106005068 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 360106005069 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 360106005070 N-terminal plug; other site 360106005071 ligand-binding site [chemical binding]; other site 360106005072 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 360106005073 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 360106005074 ABC-ATPase subunit interface; other site 360106005075 dimer interface [polypeptide binding]; other site 360106005076 putative PBP binding regions; other site 360106005077 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 360106005078 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 360106005079 Walker A/P-loop; other site 360106005080 ATP binding site [chemical binding]; other site 360106005081 Q-loop/lid; other site 360106005082 ABC transporter signature motif; other site 360106005083 Walker B; other site 360106005084 D-loop; other site 360106005085 H-loop/switch region; other site 360106005086 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 360106005087 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 360106005088 intersubunit interface [polypeptide binding]; other site 360106005089 Flavodoxin domain; Region: Flavodoxin_3; pfam12641 360106005090 Protein of unknown function (DUF541); Region: SIMPL; cl01077 360106005091 flagellar hook protein FlgE; Validated; Region: flgE; PRK08425 360106005092 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 360106005093 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 360106005094 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 360106005095 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 360106005096 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 360106005097 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 360106005098 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 360106005099 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 360106005100 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 360106005101 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 360106005102 CoA-binding site [chemical binding]; other site 360106005103 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 360106005104 homotrimer interaction site [polypeptide binding]; other site 360106005105 putative active site [active] 360106005106 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 360106005107 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 360106005108 dimerization interface [polypeptide binding]; other site 360106005109 putative ATP binding site [chemical binding]; other site 360106005110 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 360106005111 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 360106005112 active site 360106005113 nucleophile elbow; other site 360106005114 recombination factor protein RarA; Reviewed; Region: PRK13342 360106005115 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 360106005116 Walker A motif; other site 360106005117 ATP binding site [chemical binding]; other site 360106005118 Walker B motif; other site 360106005119 arginine finger; other site 360106005120 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 360106005121 EamA-like transporter family; Region: EamA; pfam00892 360106005122 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 360106005123 EamA-like transporter family; Region: EamA; pfam00892 360106005124 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 360106005125 dimer interface [polypeptide binding]; other site 360106005126 catalytic triad [active] 360106005127 peroxidatic and resolving cysteines [active] 360106005128 RDD family; Region: RDD; pfam06271 360106005129 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360106005130 active site 360106005131 ribosome recycling factor; Reviewed; Region: frr; PRK00083 360106005132 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 360106005133 hinge region; other site 360106005134 HEC/Ndc80p family; Region: Ndc80_HEC; pfam03801 360106005135 Putative catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases which consist of a 5-stranded beta/alpha barrel; Region: CE4_DAC_u4_5s; cd10973 360106005136 putative active site [active] 360106005137 putative metal binding site [ion binding]; other site 360106005138 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 360106005139 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 360106005140 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 360106005141 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 360106005142 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 360106005143 catalytic triad [active] 360106005144 putative active site [active] 360106005145 Autotransporter beta-domain; Region: Autotransporter; smart00869 360106005146 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 360106005147 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 360106005148 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 360106005149 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360106005150 active site 360106005151 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 360106005152 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 360106005153 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 360106005154 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 360106005155 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 360106005156 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 360106005157 Predicted membrane protein [Function unknown]; Region: COG2259 360106005158 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 360106005159 FMN binding site [chemical binding]; other site 360106005160 dimer interface [polypeptide binding]; other site 360106005161 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 360106005162 AIPR protein; Region: AIPR; pfam10592 360106005163 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 360106005164 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 360106005165 RNA binding surface [nucleotide binding]; other site 360106005166 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 360106005167 active site 360106005168 KpsF/GutQ family protein; Region: kpsF; TIGR00393 360106005169 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 360106005170 putative active site [active] 360106005171 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 360106005172 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 360106005173 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 360106005174 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 360106005175 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 360106005176 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 360106005177 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 360106005178 H+ Antiporter protein; Region: 2A0121; TIGR00900 360106005179 putative substrate translocation pore; other site 360106005180 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 360106005181 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 360106005182 substrate binding site [chemical binding]; other site 360106005183 glutamase interaction surface [polypeptide binding]; other site 360106005184 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 360106005185 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14462 360106005186 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 360106005187 FeS/SAM binding site; other site 360106005188 TfoX N-terminal domain; Region: TfoX_N; pfam04993 360106005189 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 360106005190 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 360106005191 active site 360106005192 adenylosuccinate lyase; Provisional; Region: PRK08470 360106005193 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 360106005194 tetramer interface [polypeptide binding]; other site 360106005195 active site 360106005196 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 360106005197 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08447 360106005198 ATP cone domain; Region: ATP-cone; pfam03477 360106005199 Class I ribonucleotide reductase; Region: RNR_I; cd01679 360106005200 active site 360106005201 dimer interface [polypeptide binding]; other site 360106005202 catalytic residues [active] 360106005203 effector binding site; other site 360106005204 R2 peptide binding site; other site 360106005205 lysine transporter; Provisional; Region: PRK10836 360106005206 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 360106005207 active site 360106005208 putative DNA-binding cleft [nucleotide binding]; other site 360106005209 dimer interface [polypeptide binding]; other site