-- dump date 20140619_021307 -- class Genbank::misc_feature -- table misc_feature_note -- id note 360105000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 360105000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 360105000003 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 360105000004 Walker A motif; other site 360105000005 ATP binding site [chemical binding]; other site 360105000006 Walker B motif; other site 360105000007 arginine finger; other site 360105000008 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 360105000009 DnaA box-binding interface [nucleotide binding]; other site 360105000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 360105000011 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 360105000012 putative DNA binding surface [nucleotide binding]; other site 360105000013 dimer interface [polypeptide binding]; other site 360105000014 beta-clamp/clamp loader binding surface; other site 360105000015 beta-clamp/translesion DNA polymerase binding surface; other site 360105000016 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 360105000017 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 360105000018 Mg2+ binding site [ion binding]; other site 360105000019 G-X-G motif; other site 360105000020 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 360105000021 anchoring element; other site 360105000022 dimer interface [polypeptide binding]; other site 360105000023 ATP binding site [chemical binding]; other site 360105000024 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 360105000025 active site 360105000026 putative metal-binding site [ion binding]; other site 360105000027 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 360105000028 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 360105000029 HD domain; Region: HD_3; pfam13023 360105000030 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 360105000031 flagellar hook-basal body protein; Region: FlgEFG_subfam; TIGR03506 360105000032 Flagellar hook protein FlgE [Cell motility and secretion]; Region: FlgE; COG1749 360105000033 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 360105000034 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK12812 360105000035 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 360105000036 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 360105000037 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 360105000038 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 360105000039 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 360105000040 G1 box; other site 360105000041 putative GEF interaction site [polypeptide binding]; other site 360105000042 GTP/Mg2+ binding site [chemical binding]; other site 360105000043 Switch I region; other site 360105000044 G2 box; other site 360105000045 G3 box; other site 360105000046 Switch II region; other site 360105000047 G4 box; other site 360105000048 G5 box; other site 360105000049 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 360105000050 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 360105000051 Dihaem cytochrome c; Region: DHC; pfam09626 360105000052 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 360105000053 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 360105000054 molybdopterin cofactor binding site; other site 360105000055 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 360105000056 molybdopterin cofactor binding site; other site 360105000057 Haem utilisation ChuX/HutX; Region: ChuX_HutX; pfam06228 360105000058 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 360105000059 non-specific DNA binding site [nucleotide binding]; other site 360105000060 salt bridge; other site 360105000061 sequence-specific DNA binding site [nucleotide binding]; other site 360105000062 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 360105000063 flagellar hook protein FlgE; Validated; Region: flgE; PRK08425 360105000064 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 360105000065 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 360105000066 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 360105000067 Predicted permease [General function prediction only]; Region: COG2056 360105000068 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 360105000069 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 360105000070 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 360105000071 Cache domain; Region: Cache_1; pfam02743 360105000072 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 360105000073 dimerization interface [polypeptide binding]; other site 360105000074 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 360105000075 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360105000076 dimer interface [polypeptide binding]; other site 360105000077 putative CheW interface [polypeptide binding]; other site 360105000078 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 360105000079 RmuC family; Region: RmuC; pfam02646 360105000080 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 360105000081 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 360105000082 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 360105000083 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 360105000084 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 360105000085 catalytic tetrad [active] 360105000086 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 360105000087 classical (c) SDRs; Region: SDR_c; cd05233 360105000088 NAD(P) binding site [chemical binding]; other site 360105000089 active site 360105000090 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 360105000091 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 360105000092 active site 360105000093 catalytic tetrad [active] 360105000094 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 360105000095 flavodoxin; Provisional; Region: PRK07116 360105000096 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360105000097 NADH(P)-binding; Region: NAD_binding_10; pfam13460 360105000098 NAD(P) binding site [chemical binding]; other site 360105000099 active site 360105000100 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 360105000101 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 360105000102 dimer interface [polypeptide binding]; other site 360105000103 active site 360105000104 metal binding site [ion binding]; metal-binding site 360105000105 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 360105000106 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 360105000107 ACS interaction site; other site 360105000108 CODH interaction site; other site 360105000109 metal cluster binding site [ion binding]; other site 360105000110 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 360105000111 NMT1-like family; Region: NMT1_2; pfam13379 360105000112 substrate binding pocket [chemical binding]; other site 360105000113 membrane-bound complex binding site; other site 360105000114 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 360105000115 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 360105000116 dimer interface [polypeptide binding]; other site 360105000117 conserved gate region; other site 360105000118 putative PBP binding loops; other site 360105000119 ABC-ATPase subunit interface; other site 360105000120 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 360105000121 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360105000122 Walker A/P-loop; other site 360105000123 ATP binding site [chemical binding]; other site 360105000124 Q-loop/lid; other site 360105000125 ABC transporter signature motif; other site 360105000126 Walker B; other site 360105000127 D-loop; other site 360105000128 H-loop/switch region; other site 360105000129 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 360105000130 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 360105000131 active site 360105000132 catalytic tetrad [active] 360105000133 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 360105000134 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 360105000135 FeS/SAM binding site; other site 360105000136 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 360105000137 ATP cone domain; Region: ATP-cone; pfam03477 360105000138 Class III ribonucleotide reductase; Region: RNR_III; cd01675 360105000139 effector binding site; other site 360105000140 active site 360105000141 Zn binding site [ion binding]; other site 360105000142 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08447 360105000143 ATP cone domain; Region: ATP-cone; pfam03477 360105000144 Class I ribonucleotide reductase; Region: RNR_I; cd01679 360105000145 active site 360105000146 dimer interface [polypeptide binding]; other site 360105000147 catalytic residues [active] 360105000148 effector binding site; other site 360105000149 R2 peptide binding site; other site 360105000150 adenylosuccinate lyase; Provisional; Region: PRK08470 360105000151 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 360105000152 tetramer interface [polypeptide binding]; other site 360105000153 active site 360105000154 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 360105000155 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 360105000156 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 360105000157 active site 360105000158 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14462 360105000159 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 360105000160 FeS/SAM binding site; other site 360105000161 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 360105000162 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 360105000163 substrate binding site [chemical binding]; other site 360105000164 glutamase interaction surface [polypeptide binding]; other site 360105000165 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 360105000166 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 360105000167 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 360105000168 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 360105000169 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 360105000170 KpsF/GutQ family protein; Region: kpsF; TIGR00393 360105000171 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 360105000172 putative active site [active] 360105000173 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 360105000174 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 360105000175 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 360105000176 RNA binding surface [nucleotide binding]; other site 360105000177 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 360105000178 active site 360105000179 YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting...; Region: YeaK; cd04336 360105000180 putative deacylase active site [active] 360105000181 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 360105000182 ligand binding site [chemical binding]; other site 360105000183 active site 360105000184 UGI interface [polypeptide binding]; other site 360105000185 catalytic site [active] 360105000186 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 360105000187 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 360105000188 N-terminal plug; other site 360105000189 ligand-binding site [chemical binding]; other site 360105000190 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 360105000191 Protein of unknown function DUF2625; Region: DUF2625; pfam10946 360105000192 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 360105000193 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 360105000194 dimerization interface [polypeptide binding]; other site 360105000195 putative ATP binding site [chemical binding]; other site 360105000196 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 360105000197 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 360105000198 CoA-binding site [chemical binding]; other site 360105000199 ATP-binding [chemical binding]; other site 360105000200 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 360105000201 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 360105000202 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 360105000203 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 360105000204 23S rRNA binding site [nucleotide binding]; other site 360105000205 L21 binding site [polypeptide binding]; other site 360105000206 L13 binding site [polypeptide binding]; other site 360105000207 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 360105000208 Peptidase family C69; Region: Peptidase_C69; cl17793 360105000209 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 360105000210 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 360105000211 THF binding site; other site 360105000212 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 360105000213 substrate binding site [chemical binding]; other site 360105000214 THF binding site; other site 360105000215 zinc-binding site [ion binding]; other site 360105000216 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 360105000217 FAD binding site [chemical binding]; other site 360105000218 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 360105000219 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360105000220 NAD(P) binding site [chemical binding]; other site 360105000221 active site 360105000222 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 360105000223 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 360105000224 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 360105000225 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 360105000226 active site 360105000227 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360105000228 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360105000229 active site 360105000230 phosphorylation site [posttranslational modification] 360105000231 intermolecular recognition site; other site 360105000232 dimerization interface [polypeptide binding]; other site 360105000233 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 360105000234 DNA binding site [nucleotide binding] 360105000235 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 360105000236 diiron binding motif [ion binding]; other site 360105000237 CCC1-related domain of ferritin; Region: Ferritin_CCC1_C; cd02431 360105000238 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 360105000239 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 360105000240 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 360105000241 active site 360105000242 dimer interface [polypeptide binding]; other site 360105000243 motif 1; other site 360105000244 motif 2; other site 360105000245 motif 3; other site 360105000246 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 360105000247 anticodon binding site; other site 360105000248 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 360105000249 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 360105000250 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 360105000251 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 360105000252 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360105000253 Coenzyme A binding pocket [chemical binding]; other site 360105000254 gamma-glutamyl kinase; Provisional; Region: PRK05429 360105000255 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 360105000256 nucleotide binding site [chemical binding]; other site 360105000257 homotetrameric interface [polypeptide binding]; other site 360105000258 putative phosphate binding site [ion binding]; other site 360105000259 putative allosteric binding site; other site 360105000260 PUA domain; Region: PUA; pfam01472 360105000261 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 360105000262 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 360105000263 putative catalytic cysteine [active] 360105000264 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 360105000265 Mrr N-terminal domain; Region: Mrr_N; pfam14338 360105000266 Restriction endonuclease; Region: Mrr_cat; pfam04471 360105000267 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 360105000268 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 360105000269 Domain of unknown function (DUF4299); Region: DUF4299; pfam14132 360105000270 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 360105000271 acetyl-CoA carboxylase subunit A; Validated; Region: PRK08463 360105000272 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 360105000273 ATP-grasp domain; Region: ATP-grasp_4; cl17255 360105000274 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 360105000275 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 360105000276 TM2 domain; Region: TM2; pfam05154 360105000277 Short C-terminal domain; Region: SHOCT; pfam09851 360105000278 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 360105000279 lipoprotein signal peptidase; Provisional; Region: PRK14787 360105000280 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14324 360105000281 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 360105000282 active site 360105000283 substrate binding site [chemical binding]; other site 360105000284 metal binding site [ion binding]; metal-binding site 360105000285 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 360105000286 peptide chain release factor 1; Validated; Region: prfA; PRK00591 360105000287 This domain is found in peptide chain release factors; Region: PCRF; smart00937 360105000288 RF-1 domain; Region: RF-1; pfam00472 360105000289 TOBE domain; Region: TOBE; cl01440 360105000290 TOBE domain; Region: TOBE; cl01440 360105000291 Firmicute plasmid replication protein (RepL); Region: RepL; pfam05732 360105000292 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 360105000293 putative metal dependent hydrolase; Provisional; Region: PRK11598 360105000294 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 360105000295 Sulfatase; Region: Sulfatase; pfam00884 360105000296 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 360105000297 putative catalytic site [active] 360105000298 putative metal binding site [ion binding]; other site 360105000299 putative phosphate binding site [ion binding]; other site 360105000300 Predicted membrane protein [Function unknown]; Region: COG1971 360105000301 Domain of unknown function DUF; Region: DUF204; pfam02659 360105000302 Domain of unknown function DUF; Region: DUF204; pfam02659 360105000303 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 360105000304 S-adenosylmethionine binding site [chemical binding]; other site 360105000305 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 360105000306 active site 360105000307 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 360105000308 metal binding site 2 [ion binding]; metal-binding site 360105000309 putative DNA binding helix; other site 360105000310 metal binding site 1 [ion binding]; metal-binding site 360105000311 dimer interface [polypeptide binding]; other site 360105000312 structural Zn2+ binding site [ion binding]; other site 360105000313 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 360105000314 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 360105000315 putative metal binding residues [ion binding]; other site 360105000316 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 360105000317 High-affinity nickel-transport protein; Region: NicO; cl00964 360105000318 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 360105000319 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 360105000320 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 360105000321 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 360105000322 ABC-ATPase subunit interface; other site 360105000323 dimer interface [polypeptide binding]; other site 360105000324 putative PBP binding regions; other site 360105000325 EamA-like transporter family; Region: EamA; pfam00892 360105000326 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 360105000327 EamA-like transporter family; Region: EamA; pfam00892 360105000328 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 360105000329 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 360105000330 PAS domain; Region: PAS_9; pfam13426 360105000331 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 360105000332 putative active site [active] 360105000333 heme pocket [chemical binding]; other site 360105000334 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360105000335 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 360105000336 endonuclease IV; Provisional; Region: PRK01060 360105000337 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 360105000338 AP (apurinic/apyrimidinic) site pocket; other site 360105000339 DNA interaction; other site 360105000340 Metal-binding active site; metal-binding site 360105000341 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 360105000342 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 360105000343 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 360105000344 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 360105000345 acyl-activating enzyme (AAE) consensus motif; other site 360105000346 AMP binding site [chemical binding]; other site 360105000347 active site 360105000348 CoA binding site [chemical binding]; other site 360105000349 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 360105000350 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 360105000351 gating phenylalanine in ion channel; other site 360105000352 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 360105000353 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08472 360105000354 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 360105000355 Walker A motif/ATP binding site; other site 360105000356 Walker B motif; other site 360105000357 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 360105000358 homodecamer interface [polypeptide binding]; other site 360105000359 GTP cyclohydrolase I; Provisional; Region: PLN03044 360105000360 active site 360105000361 putative catalytic site residues [active] 360105000362 zinc binding site [ion binding]; other site 360105000363 GTP-CH-I/GFRP interaction surface; other site 360105000364 trigger factor; Provisional; Region: tig; PRK01490 360105000365 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 360105000366 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 360105000367 Clp protease; Region: CLP_protease; pfam00574 360105000368 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 360105000369 oligomer interface [polypeptide binding]; other site 360105000370 active site residues [active] 360105000371 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360105000372 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360105000373 metal binding site [ion binding]; metal-binding site 360105000374 active site 360105000375 I-site; other site 360105000376 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 360105000377 active site 360105000378 catalytic residues [active] 360105000379 metal binding site [ion binding]; metal-binding site 360105000380 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 360105000381 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 360105000382 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 360105000383 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 360105000384 Uncharacterized conserved protein [Function unknown]; Region: COG0062 360105000385 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 360105000386 putative substrate binding site [chemical binding]; other site 360105000387 putative ATP binding site [chemical binding]; other site 360105000388 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 360105000389 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 360105000390 active site 360105000391 substrate binding site [chemical binding]; other site 360105000392 cosubstrate binding site; other site 360105000393 catalytic site [active] 360105000394 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 360105000395 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 360105000396 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 360105000397 A new structural DNA glycosylase; Region: AlkD_like; cd06561 360105000398 active site 360105000399 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 360105000400 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 360105000401 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 360105000402 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 360105000403 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 360105000404 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 360105000405 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 360105000406 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 360105000407 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 360105000408 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 360105000409 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 360105000410 4Fe-4S binding domain; Region: Fer4; pfam00037 360105000411 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 360105000412 NADH dehydrogenase subunit G; Validated; Region: PRK08493 360105000413 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 360105000414 catalytic loop [active] 360105000415 iron binding site [ion binding]; other site 360105000416 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 360105000417 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 360105000418 molybdopterin cofactor binding site; other site 360105000419 NADH dehydrogenase subunit G; Validated; Region: PRK08493 360105000420 NADH dehydrogenase subunit D; Validated; Region: PRK06075 360105000421 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 360105000422 NADH dehydrogenase subunit C; Provisional; Region: PRK08491 360105000423 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 360105000424 NADH dehydrogenase subunit B; Validated; Region: PRK06411 360105000425 NADH dehydrogenase subunit A; Validated; Region: PRK08489 360105000426 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 360105000427 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 360105000428 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 360105000429 Walker A/P-loop; other site 360105000430 ATP binding site [chemical binding]; other site 360105000431 Q-loop/lid; other site 360105000432 ABC transporter signature motif; other site 360105000433 Walker B; other site 360105000434 D-loop; other site 360105000435 H-loop/switch region; other site 360105000436 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 360105000437 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 360105000438 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 360105000439 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 360105000440 coproporphyrinogen III oxidase; Provisional; Region: PRK08629 360105000441 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 360105000442 FeS/SAM binding site; other site 360105000443 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 360105000444 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 360105000445 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 360105000446 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 360105000447 putative ligand binding site [chemical binding]; other site 360105000448 putative NAD binding site [chemical binding]; other site 360105000449 catalytic site [active] 360105000450 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 360105000451 hypothetical protein; Provisional; Region: PRK04081 360105000452 Helix-turn-helix domain; Region: HTH_17; pfam12728 360105000453 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 360105000454 L-aspartate oxidase; Provisional; Region: PRK06175 360105000455 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 360105000456 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360105000457 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 360105000458 dimer interface [polypeptide binding]; other site 360105000459 phosphorylation site [posttranslational modification] 360105000460 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 360105000461 ATP binding site [chemical binding]; other site 360105000462 Mg2+ binding site [ion binding]; other site 360105000463 G-X-G motif; other site 360105000464 Response regulator receiver domain; Region: Response_reg; pfam00072 360105000465 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360105000466 active site 360105000467 phosphorylation site [posttranslational modification] 360105000468 intermolecular recognition site; other site 360105000469 dimerization interface [polypeptide binding]; other site 360105000470 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 360105000471 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 360105000472 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 360105000473 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 360105000474 4Fe-4S binding domain; Region: Fer4_5; pfam12801 360105000475 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 360105000476 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 360105000477 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 360105000478 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 360105000479 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 360105000480 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 360105000481 HlyD family secretion protein; Region: HlyD_3; pfam13437 360105000482 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 360105000483 Protein export membrane protein; Region: SecD_SecF; cl14618 360105000484 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 360105000485 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 360105000486 trimerization site [polypeptide binding]; other site 360105000487 active site 360105000488 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 360105000489 NifU-like domain; Region: NifU; cl00484 360105000490 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 360105000491 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 360105000492 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360105000493 catalytic residue [active] 360105000494 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 360105000495 S-adenosylmethionine binding site [chemical binding]; other site 360105000496 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 360105000497 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 360105000498 dimer interface [polypeptide binding]; other site 360105000499 putative PBP binding regions; other site 360105000500 ABC-ATPase subunit interface; other site 360105000501 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 360105000502 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 360105000503 Walker A/P-loop; other site 360105000504 ATP binding site [chemical binding]; other site 360105000505 Q-loop/lid; other site 360105000506 ABC transporter signature motif; other site 360105000507 Walker B; other site 360105000508 D-loop; other site 360105000509 H-loop/switch region; other site 360105000510 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 360105000511 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 360105000512 intersubunit interface [polypeptide binding]; other site 360105000513 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 360105000514 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 360105000515 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 360105000516 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 360105000517 prenyltransferase; Reviewed; Region: ubiA; PRK12874 360105000518 UbiA prenyltransferase family; Region: UbiA; pfam01040 360105000519 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 360105000520 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 360105000521 FeS/SAM binding site; other site 360105000522 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 360105000523 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 360105000524 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 360105000525 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 360105000526 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 360105000527 RNA methyltransferase, RsmE family; Region: TIGR00046 360105000528 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 360105000529 Predicted methyltransferases [General function prediction only]; Region: COG0313 360105000530 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 360105000531 putative SAM binding site [chemical binding]; other site 360105000532 putative homodimer interface [polypeptide binding]; other site 360105000533 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 360105000534 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 360105000535 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 360105000536 aspartate aminotransferase; Provisional; Region: PRK08636 360105000537 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 360105000538 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360105000539 homodimer interface [polypeptide binding]; other site 360105000540 catalytic residue [active] 360105000541 homoserine dehydrogenase; Provisional; Region: PRK06349 360105000542 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 360105000543 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 360105000544 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 360105000545 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 360105000546 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 360105000547 catalytic residues [active] 360105000548 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 360105000549 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 360105000550 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360105000551 dihydrodipicolinate reductase; Provisional; Region: PRK00048 360105000552 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 360105000553 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 360105000554 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 360105000555 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 360105000556 amidophosphoribosyltransferase; Provisional; Region: PRK08525 360105000557 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 360105000558 active site 360105000559 tetramer interface [polypeptide binding]; other site 360105000560 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360105000561 active site 360105000562 Cytochrome c; Region: Cytochrom_C; cl11414 360105000563 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 360105000564 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 360105000565 molybdopterin cofactor binding site; other site 360105000566 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 360105000567 molybdopterin cofactor binding site; other site 360105000568 Cache domain; Region: Cache_1; pfam02743 360105000569 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 360105000570 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 360105000571 putative active site [active] 360105000572 heme pocket [chemical binding]; other site 360105000573 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 360105000574 ATP binding site [chemical binding]; other site 360105000575 Mg2+ binding site [ion binding]; other site 360105000576 G-X-G motif; other site 360105000577 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360105000578 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360105000579 active site 360105000580 phosphorylation site [posttranslational modification] 360105000581 intermolecular recognition site; other site 360105000582 dimerization interface [polypeptide binding]; other site 360105000583 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 360105000584 DNA binding site [nucleotide binding] 360105000585 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 360105000586 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 360105000587 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 360105000588 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 360105000589 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 360105000590 metal binding site [ion binding]; metal-binding site 360105000591 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 360105000592 SPFH domain / Band 7 family; Region: Band_7; pfam01145 360105000593 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 360105000594 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 360105000595 homodimer interface [polypeptide binding]; other site 360105000596 substrate-cofactor binding pocket; other site 360105000597 catalytic residue [active] 360105000598 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 360105000599 catalytic residues [active] 360105000600 hinge region; other site 360105000601 alpha helical domain; other site 360105000602 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 360105000603 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 360105000604 catalytic triad [active] 360105000605 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 360105000606 active site 1 [active] 360105000607 dimer interface [polypeptide binding]; other site 360105000608 hexamer interface [polypeptide binding]; other site 360105000609 active site 2 [active] 360105000610 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 360105000611 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 360105000612 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 360105000613 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 360105000614 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 360105000615 Ligand Binding Site [chemical binding]; other site 360105000616 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 360105000617 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 360105000618 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 360105000619 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 360105000620 active site 360105000621 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 360105000622 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 360105000623 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 360105000624 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 360105000625 Walker A motif; other site 360105000626 ATP binding site [chemical binding]; other site 360105000627 Walker B motif; other site 360105000628 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 360105000629 rod shape-determining protein MreB; Provisional; Region: PRK13927 360105000630 MreB and similar proteins; Region: MreB_like; cd10225 360105000631 nucleotide binding site [chemical binding]; other site 360105000632 Mg binding site [ion binding]; other site 360105000633 putative protofilament interaction site [polypeptide binding]; other site 360105000634 RodZ interaction site [polypeptide binding]; other site 360105000635 rod shape-determining protein MreC; Provisional; Region: PRK13922 360105000636 rod shape-determining protein MreC; Region: MreC; pfam04085 360105000637 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 360105000638 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 360105000639 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 360105000640 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 360105000641 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 360105000642 ATP-grasp domain; Region: ATP-grasp_4; cl17255 360105000643 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 360105000644 IMP binding site; other site 360105000645 dimer interface [polypeptide binding]; other site 360105000646 interdomain contacts; other site 360105000647 partial ornithine binding site; other site 360105000648 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 360105000649 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 360105000650 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 360105000651 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 360105000652 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 360105000653 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 360105000654 dimerization interface [polypeptide binding]; other site 360105000655 putative DNA binding site [nucleotide binding]; other site 360105000656 putative Zn2+ binding site [ion binding]; other site 360105000657 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360105000658 NAD(P) binding site [chemical binding]; other site 360105000659 active site 360105000660 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 360105000661 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 360105000662 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 360105000663 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 360105000664 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 360105000665 inhibitor-cofactor binding pocket; inhibition site 360105000666 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360105000667 catalytic residue [active] 360105000668 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 360105000669 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 360105000670 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 360105000671 EamA-like transporter family; Region: EamA; pfam00892 360105000672 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 360105000673 EamA-like transporter family; Region: EamA; pfam00892 360105000674 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 360105000675 glutamate dehydrogenase; Provisional; Region: PRK09414 360105000676 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 360105000677 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 360105000678 NAD(P) binding pocket [chemical binding]; other site 360105000679 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; cd01292 360105000680 active site 360105000681 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 360105000682 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 360105000683 putative substrate translocation pore; other site 360105000684 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 360105000685 putative acyl-acceptor binding pocket; other site 360105000686 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 360105000687 acyl-activating enzyme (AAE) consensus motif; other site 360105000688 AMP binding site [chemical binding]; other site 360105000689 active site 360105000690 CoA binding site [chemical binding]; other site 360105000691 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg5; cd04780 360105000692 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 360105000693 DNA binding residues [nucleotide binding] 360105000694 putative dimer interface [polypeptide binding]; other site 360105000695 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 360105000696 putative ligand binding residues [chemical binding]; other site 360105000697 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 360105000698 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 360105000699 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 360105000700 ABC-ATPase subunit interface; other site 360105000701 dimer interface [polypeptide binding]; other site 360105000702 putative PBP binding regions; other site 360105000703 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 360105000704 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360105000705 Walker A/P-loop; other site 360105000706 ATP binding site [chemical binding]; other site 360105000707 Q-loop/lid; other site 360105000708 ABC transporter signature motif; other site 360105000709 Walker B; other site 360105000710 D-loop; other site 360105000711 H-loop/switch region; other site 360105000712 Protein of unknown function (DUF507); Region: DUF507; pfam04368 360105000713 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 360105000714 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 360105000715 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 360105000716 catalytic site [active] 360105000717 subunit interface [polypeptide binding]; other site 360105000718 Family description; Region: DsbD_2; pfam13386 360105000719 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 360105000720 PAS domain; Region: PAS_9; pfam13426 360105000721 putative active site [active] 360105000722 heme pocket [chemical binding]; other site 360105000723 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360105000724 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 360105000725 ATP binding site [chemical binding]; other site 360105000726 Mg2+ binding site [ion binding]; other site 360105000727 G-X-G motif; other site 360105000728 cbb3-type cytochrome c oxidase subunit I; Provisional; Region: PRK14488 360105000729 Low-spin heme binding site [chemical binding]; other site 360105000730 D-pathway; other site 360105000731 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 360105000732 Putative water exit pathway; other site 360105000733 Binuclear center (active site) [active] 360105000734 K-pathway; other site 360105000735 Putative proton exit pathway; other site 360105000736 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 360105000737 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 360105000738 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cl00282 360105000739 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 360105000740 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 360105000741 Cytochrome c; Region: Cytochrom_C; pfam00034 360105000742 Family of unknown function (DUF4006); Region: DUF4006; pfam13179 360105000743 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 360105000744 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 360105000745 putative recombination protein RecB; Provisional; Region: PRK13909 360105000746 Family description; Region: UvrD_C_2; pfam13538 360105000747 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 360105000748 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 360105000749 23S rRNA interface [nucleotide binding]; other site 360105000750 L3 interface [polypeptide binding]; other site 360105000751 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 360105000752 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 360105000753 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 360105000754 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 360105000755 ligand binding site [chemical binding]; other site 360105000756 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 360105000757 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 360105000758 motif II; other site 360105000759 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 360105000760 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 360105000761 dimer interface [polypeptide binding]; other site 360105000762 PYR/PP interface [polypeptide binding]; other site 360105000763 TPP binding site [chemical binding]; other site 360105000764 substrate binding site [chemical binding]; other site 360105000765 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 360105000766 Domain of unknown function; Region: EKR; smart00890 360105000767 4Fe-4S binding domain; Region: Fer4_6; pfam12837 360105000768 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 360105000769 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 360105000770 TPP-binding site [chemical binding]; other site 360105000771 dimer interface [polypeptide binding]; other site 360105000772 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 360105000773 aspartate racemase; Region: asp_race; TIGR00035 360105000774 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4378 360105000775 flavodoxin FldA; Validated; Region: PRK09267 360105000776 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 360105000777 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 360105000778 substrate binding site [chemical binding]; other site 360105000779 nickel transporter permease NikB; Provisional; Region: PRK10352 360105000780 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 360105000781 dimer interface [polypeptide binding]; other site 360105000782 conserved gate region; other site 360105000783 putative PBP binding loops; other site 360105000784 ABC-ATPase subunit interface; other site 360105000785 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 360105000786 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 360105000787 dimer interface [polypeptide binding]; other site 360105000788 conserved gate region; other site 360105000789 putative PBP binding loops; other site 360105000790 ABC-ATPase subunit interface; other site 360105000791 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 360105000792 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360105000793 Walker A/P-loop; other site 360105000794 ATP binding site [chemical binding]; other site 360105000795 Q-loop/lid; other site 360105000796 ABC transporter signature motif; other site 360105000797 Walker B; other site 360105000798 D-loop; other site 360105000799 H-loop/switch region; other site 360105000800 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 360105000801 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360105000802 Walker A/P-loop; other site 360105000803 ATP binding site [chemical binding]; other site 360105000804 Q-loop/lid; other site 360105000805 ABC transporter signature motif; other site 360105000806 Walker B; other site 360105000807 D-loop; other site 360105000808 H-loop/switch region; other site 360105000809 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 360105000810 Cytochrome c; Region: Cytochrom_C; pfam00034 360105000811 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 360105000812 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 360105000813 intrachain domain interface; other site 360105000814 interchain domain interface [polypeptide binding]; other site 360105000815 heme bH binding site [chemical binding]; other site 360105000816 heme bL binding site [chemical binding]; other site 360105000817 Qo binding site; other site 360105000818 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 360105000819 interchain domain interface [polypeptide binding]; other site 360105000820 intrachain domain interface; other site 360105000821 Qi binding site; other site 360105000822 Qo binding site; other site 360105000823 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 360105000824 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 360105000825 iron-sulfur cluster [ion binding]; other site 360105000826 [2Fe-2S] cluster binding site [ion binding]; other site 360105000827 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 360105000828 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 360105000829 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 360105000830 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 360105000831 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 360105000832 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 360105000833 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 360105000834 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360105000835 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360105000836 active site 360105000837 phosphorylation site [posttranslational modification] 360105000838 intermolecular recognition site; other site 360105000839 dimerization interface [polypeptide binding]; other site 360105000840 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 360105000841 DNA binding site [nucleotide binding] 360105000842 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360105000843 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 360105000844 dimer interface [polypeptide binding]; other site 360105000845 phosphorylation site [posttranslational modification] 360105000846 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 360105000847 ATP binding site [chemical binding]; other site 360105000848 Mg2+ binding site [ion binding]; other site 360105000849 G-X-G motif; other site 360105000850 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 360105000851 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 360105000852 putative outer membrane receptor; Provisional; Region: PRK13513 360105000853 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 360105000854 N-terminal plug; other site 360105000855 ligand-binding site [chemical binding]; other site 360105000856 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 360105000857 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 360105000858 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 360105000859 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 360105000860 pantothenate kinase, eukaryotic/staphyloccocal type; Region: panK_eukar; TIGR00555 360105000861 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 360105000862 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 360105000863 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 360105000864 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 360105000865 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 360105000866 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 360105000867 fumarate hydratase; Reviewed; Region: fumC; PRK00485 360105000868 Class II fumarases; Region: Fumarase_classII; cd01362 360105000869 active site 360105000870 tetramer interface [polypeptide binding]; other site 360105000871 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 360105000872 putative substrate translocation pore; other site 360105000873 Major Facilitator Superfamily; Region: MFS_1; pfam07690 360105000874 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 360105000875 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 360105000876 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 360105000877 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 360105000878 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 360105000879 hydrogenase 4 subunit B; Validated; Region: PRK06521 360105000880 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 360105000881 NADH dehydrogenase; Region: NADHdh; cl00469 360105000882 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 360105000883 hydrogenase 4 membrane subunit; Provisional; Region: hyfE; PRK11492 360105000884 hydrogenase 4 subunit F; Validated; Region: PRK06458 360105000885 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 360105000886 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 360105000887 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 360105000888 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 360105000889 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 360105000890 4Fe-4S binding domain; Region: Fer4; cl02805 360105000891 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 360105000892 Formate hydrogenlyase maturation protein HycH; Region: HycH; cl06472 360105000893 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 360105000894 nickel binding site [ion binding]; other site 360105000895 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 360105000896 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 360105000897 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 360105000898 putative switch regulator; other site 360105000899 non-specific DNA interactions [nucleotide binding]; other site 360105000900 DNA binding site [nucleotide binding] 360105000901 sequence specific DNA binding site [nucleotide binding]; other site 360105000902 putative cAMP binding site [chemical binding]; other site 360105000903 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 360105000904 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360105000905 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360105000906 metal binding site [ion binding]; metal-binding site 360105000907 active site 360105000908 I-site; other site 360105000909 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 360105000910 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360105000911 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360105000912 metal binding site [ion binding]; metal-binding site 360105000913 active site 360105000914 I-site; other site 360105000915 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 360105000916 dUTPase; Region: dUTPase_2; pfam08761 360105000917 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 360105000918 active site 360105000919 homodimer interface [polypeptide binding]; other site 360105000920 metal binding site [ion binding]; metal-binding site 360105000921 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360105000922 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3787; cl17897 360105000923 S-ribosylhomocysteinase; Provisional; Region: PRK02260 360105000924 Protein of unknown function, DUF399; Region: DUF399; pfam04187 360105000925 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 360105000926 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 360105000927 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 360105000928 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 360105000929 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 360105000930 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 360105000931 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 360105000932 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03815 360105000933 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360105000934 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 360105000935 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 360105000936 Mg++ binding site [ion binding]; other site 360105000937 putative catalytic motif [active] 360105000938 putative substrate binding site [chemical binding]; other site 360105000939 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 360105000940 phosphoglyceromutase; Provisional; Region: PRK05434 360105000941 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 360105000942 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360105000943 NAD(P) binding site [chemical binding]; other site 360105000944 active site 360105000945 acyl carrier protein; Provisional; Region: acpP; PRK00982 360105000946 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 360105000947 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 360105000948 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 360105000949 Lumazine binding domain; Region: Lum_binding; pfam00677 360105000950 Lumazine binding domain; Region: Lum_binding; pfam00677 360105000951 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 360105000952 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 360105000953 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 360105000954 Sel1-like repeats; Region: SEL1; smart00671 360105000955 Sel1-like repeats; Region: SEL1; smart00671 360105000956 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 360105000957 rRNA interaction site [nucleotide binding]; other site 360105000958 S8 interaction site; other site 360105000959 putative laminin-1 binding site; other site 360105000960 elongation factor Ts; Provisional; Region: tsf; PRK09377 360105000961 UBA/TS-N domain; Region: UBA; pfam00627 360105000962 Elongation factor TS; Region: EF_TS; pfam00889 360105000963 Elongation factor TS; Region: EF_TS; pfam00889 360105000964 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 360105000965 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 360105000966 Walker A/P-loop; other site 360105000967 ATP binding site [chemical binding]; other site 360105000968 Q-loop/lid; other site 360105000969 ABC transporter signature motif; other site 360105000970 Walker B; other site 360105000971 D-loop; other site 360105000972 H-loop/switch region; other site 360105000973 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 360105000974 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 360105000975 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 360105000976 catalytic site [active] 360105000977 G-X2-G-X-G-K; other site 360105000978 twin arginine-targeting protein translocase, TatA/E family; Region: tatAE; TIGR01411 360105000979 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 360105000980 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 360105000981 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 360105000982 active site 360105000983 HIGH motif; other site 360105000984 KMSK motif region; other site 360105000985 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 360105000986 tRNA binding surface [nucleotide binding]; other site 360105000987 anticodon binding site; other site 360105000988 Predicted membrane protein [Function unknown]; Region: COG2855 360105000989 Predicted metalloprotease [General function prediction only]; Region: COG2321 360105000990 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 360105000991 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 360105000992 nicotinate (nicotinamide) nucleotide adenylyltransferase; Region: TIGR00482 360105000993 active site 360105000994 (T/H)XGH motif; other site 360105000995 Oligomerisation domain; Region: Oligomerisation; pfam02410 360105000996 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 360105000997 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 360105000998 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 360105000999 Phosphoglycerate kinase; Region: PGK; pfam00162 360105001000 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 360105001001 substrate binding site [chemical binding]; other site 360105001002 hinge regions; other site 360105001003 ADP binding site [chemical binding]; other site 360105001004 catalytic site [active] 360105001005 triosephosphate isomerase; Provisional; Region: PRK14565 360105001006 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 360105001007 substrate binding site [chemical binding]; other site 360105001008 dimer interface [polypeptide binding]; other site 360105001009 catalytic triad [active] 360105001010 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08415 360105001011 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 360105001012 NAD binding site [chemical binding]; other site 360105001013 homotetramer interface [polypeptide binding]; other site 360105001014 homodimer interface [polypeptide binding]; other site 360105001015 substrate binding site [chemical binding]; other site 360105001016 active site 360105001017 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 360105001018 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 360105001019 active site 360105001020 FMN binding site [chemical binding]; other site 360105001021 substrate binding site [chemical binding]; other site 360105001022 homotetramer interface [polypeptide binding]; other site 360105001023 catalytic residue [active] 360105001024 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 360105001025 Predicted dehydrogenase [General function prediction only]; Region: COG0579 360105001026 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 360105001027 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 360105001028 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 360105001029 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 360105001030 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 360105001031 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 360105001032 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 360105001033 N-terminal plug; other site 360105001034 ligand-binding site [chemical binding]; other site 360105001035 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 360105001036 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 360105001037 putative active site [active] 360105001038 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360105001039 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 360105001040 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 360105001041 active site 360105001042 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 360105001043 putative active site [active] 360105001044 putative metal binding site [ion binding]; other site 360105001045 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 360105001046 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360105001047 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 360105001048 putative active site [active] 360105001049 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 360105001050 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 360105001051 putative metal binding site; other site 360105001052 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 360105001053 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 360105001054 putative acyl-acceptor binding pocket; other site 360105001055 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 360105001056 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 360105001057 putative active site [active] 360105001058 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 360105001059 active site 360105001060 catalytic site [active] 360105001061 substrate binding site [chemical binding]; other site 360105001062 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 360105001063 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 360105001064 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 360105001065 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 360105001066 putative NAD(P) binding site [chemical binding]; other site 360105001067 active site 360105001068 putative substrate binding site [chemical binding]; other site 360105001069 DNA ligase; Provisional; Region: PRK09125 360105001070 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 360105001071 DNA binding site [nucleotide binding] 360105001072 active site 360105001073 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 360105001074 DNA binding site [nucleotide binding] 360105001075 UDP-glucose-4-epimerase GalE; Region: galE; TIGR01179 360105001076 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 360105001077 NAD binding site [chemical binding]; other site 360105001078 homodimer interface [polypeptide binding]; other site 360105001079 active site 360105001080 substrate binding site [chemical binding]; other site 360105001081 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 360105001082 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 360105001083 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 360105001084 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 360105001085 Ecotin; Region: Ecotin; pfam03974 360105001086 secondary substrate binding site; other site 360105001087 primary substrate binding site; other site 360105001088 inhibition loop; other site 360105001089 dimerization interface [polypeptide binding]; other site 360105001090 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 360105001091 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 360105001092 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 360105001093 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 360105001094 Oligosaccharyl transferase STT3 subunit; Region: STT3; pfam02516 360105001095 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 360105001096 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 360105001097 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 360105001098 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 360105001099 active site 360105001100 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360105001101 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 360105001102 putative ADP-binding pocket [chemical binding]; other site 360105001103 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360105001104 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 360105001105 putative ADP-binding pocket [chemical binding]; other site 360105001106 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360105001107 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 360105001108 putative ADP-binding pocket [chemical binding]; other site 360105001109 Oligosaccharyl transferase STT3 subunit; Region: STT3; pfam02516 360105001110 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 360105001111 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360105001112 putative ADP-binding pocket [chemical binding]; other site 360105001113 Bacterial sugar transferase; Region: Bac_transf; pfam02397 360105001114 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 360105001115 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 360105001116 putative trimer interface [polypeptide binding]; other site 360105001117 putative CoA binding site [chemical binding]; other site 360105001118 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 360105001119 YheO-like PAS domain; Region: PAS_6; pfam08348 360105001120 HTH domain; Region: HTH_22; pfam13309 360105001121 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 360105001122 homotrimer interaction site [polypeptide binding]; other site 360105001123 putative active site [active] 360105001124 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 360105001125 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 360105001126 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 360105001127 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360105001128 catalytic residue [active] 360105001129 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 360105001130 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 360105001131 tetramer interface [polypeptide binding]; other site 360105001132 active site 360105001133 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 360105001134 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 360105001135 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 360105001136 inhibitor-cofactor binding pocket; inhibition site 360105001137 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360105001138 catalytic residue [active] 360105001139 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 360105001140 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 360105001141 NAD(P) binding site [chemical binding]; other site 360105001142 homodimer interface [polypeptide binding]; other site 360105001143 substrate binding site [chemical binding]; other site 360105001144 active site 360105001145 Cache domain; Region: Cache_1; pfam02743 360105001146 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 360105001147 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 360105001148 putative active site [active] 360105001149 oxyanion strand; other site 360105001150 catalytic triad [active] 360105001151 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 360105001152 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 360105001153 catalytic residues [active] 360105001154 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 360105001155 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360105001156 active site 360105001157 phosphorylation site [posttranslational modification] 360105001158 intermolecular recognition site; other site 360105001159 dimerization interface [polypeptide binding]; other site 360105001160 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 360105001161 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 360105001162 S-adenosylmethionine binding site [chemical binding]; other site 360105001163 FtsH Extracellular; Region: FtsH_ext; pfam06480 360105001164 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 360105001165 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 360105001166 Walker A motif; other site 360105001167 ATP binding site [chemical binding]; other site 360105001168 Walker B motif; other site 360105001169 arginine finger; other site 360105001170 Peptidase family M41; Region: Peptidase_M41; pfam01434 360105001171 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 360105001172 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 360105001173 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 360105001174 2-isopropylmalate synthase; Validated; Region: PRK00915 360105001175 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 360105001176 active site 360105001177 catalytic residues [active] 360105001178 metal binding site [ion binding]; metal-binding site 360105001179 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 360105001180 flagellar motor protein MotA; Validated; Region: PRK08456 360105001181 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 360105001182 flagellar motor protein MotB; Reviewed; Region: motB; PRK08457 360105001183 OmpA family; Region: OmpA; pfam00691 360105001184 ligand binding site [chemical binding]; other site 360105001185 Tetratricopeptide repeat; Region: TPR_16; pfam13432 360105001186 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 360105001187 TPR motif; other site 360105001188 binding surface 360105001189 seryl-tRNA synthetase; Provisional; Region: PRK05431 360105001190 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 360105001191 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 360105001192 dimer interface [polypeptide binding]; other site 360105001193 active site 360105001194 motif 1; other site 360105001195 motif 2; other site 360105001196 motif 3; other site 360105001197 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 360105001198 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 360105001199 active site 360105001200 HIGH motif; other site 360105001201 dimer interface [polypeptide binding]; other site 360105001202 KMSKS motif; other site 360105001203 shikimate kinase; Reviewed; Region: aroK; PRK00131 360105001204 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 360105001205 ADP binding site [chemical binding]; other site 360105001206 magnesium binding site [ion binding]; other site 360105001207 putative shikimate binding site; other site 360105001208 GTP-binding protein Der; Reviewed; Region: PRK00093 360105001209 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 360105001210 G1 box; other site 360105001211 GTP/Mg2+ binding site [chemical binding]; other site 360105001212 Switch I region; other site 360105001213 G2 box; other site 360105001214 Switch II region; other site 360105001215 G3 box; other site 360105001216 G4 box; other site 360105001217 G5 box; other site 360105001218 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 360105001219 GTP/Mg2+ binding site [chemical binding]; other site 360105001220 Switch I region; other site 360105001221 G2 box; other site 360105001222 G3 box; other site 360105001223 Switch II region; other site 360105001224 G4 box; other site 360105001225 G5 box; other site 360105001226 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 360105001227 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 360105001228 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 360105001229 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 360105001230 homopentamer interface [polypeptide binding]; other site 360105001231 active site 360105001232 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 360105001233 putative RNA binding site [nucleotide binding]; other site 360105001234 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 360105001235 active site 360105001236 dimer interface [polypeptide binding]; other site 360105001237 Pathogenicity locus; Region: Cdd1; pfam11731 360105001238 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 360105001239 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 360105001240 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 360105001241 putative acyl-acceptor binding pocket; other site 360105001242 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 360105001243 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 360105001244 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 360105001245 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 360105001246 Putative methyltransferase; Region: Methyltransf_20; pfam12147 360105001247 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 360105001248 active site 360105001249 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 360105001250 active site 360105001251 catalytic residues [active] 360105001252 DKNYY family; Region: DKNYY; pfam13644 360105001253 DKNYY family; Region: DKNYY; pfam13644 360105001254 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 360105001255 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 360105001256 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 360105001257 dimer interface [polypeptide binding]; other site 360105001258 active site 360105001259 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 360105001260 active site 2 [active] 360105001261 active site 1 [active] 360105001262 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 360105001263 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360105001264 NAD(P) binding site [chemical binding]; other site 360105001265 active site 360105001266 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 360105001267 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 360105001268 dimer interface [polypeptide binding]; other site 360105001269 active site 360105001270 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 360105001271 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 360105001272 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 360105001273 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 360105001274 putative acyl-acceptor binding pocket; other site 360105001275 Phosphopantetheine attachment site; Region: PP-binding; cl09936 360105001276 acyl carrier protein; Provisional; Region: PRK05350 360105001277 Predicted membrane protein [Function unknown]; Region: COG4648 360105001278 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 360105001279 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 360105001280 acyl-activating enzyme (AAE) consensus motif; other site 360105001281 active site 360105001282 AMP binding site [chemical binding]; other site 360105001283 CoA binding site [chemical binding]; other site 360105001284 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 360105001285 active site 2 [active] 360105001286 dimer interface [polypeptide binding]; other site 360105001287 active site 1 [active] 360105001288 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 360105001289 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 360105001290 Ligand binding site; other site 360105001291 Putative Catalytic site; other site 360105001292 DXD motif; other site 360105001293 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 360105001294 putative acyl-acceptor binding pocket; other site 360105001295 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 360105001296 active site 360105001297 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 360105001298 Predicted exporter [General function prediction only]; Region: COG4258 360105001299 Protein export membrane protein; Region: SecD_SecF; cl14618 360105001300 Competence-damaged protein; Region: CinA; pfam02464 360105001301 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 360105001302 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360105001303 active site 360105001304 HIGH motif; other site 360105001305 nucleotide binding site [chemical binding]; other site 360105001306 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 360105001307 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 360105001308 active site 360105001309 KMSKS motif; other site 360105001310 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 360105001311 tRNA binding surface [nucleotide binding]; other site 360105001312 anticodon binding site; other site 360105001313 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 360105001314 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 360105001315 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 360105001316 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 360105001317 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 360105001318 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 360105001319 active site 360105001320 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 360105001321 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 360105001322 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 360105001323 Predicted amidohydrolase [General function prediction only]; Region: COG0388 360105001324 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 360105001325 active site 360105001326 catalytic triad [active] 360105001327 dimer interface [polypeptide binding]; other site 360105001328 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 360105001329 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 360105001330 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 360105001331 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360105001332 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 360105001333 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 360105001334 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360105001335 Walker A/P-loop; other site 360105001336 ATP binding site [chemical binding]; other site 360105001337 Q-loop/lid; other site 360105001338 ABC transporter signature motif; other site 360105001339 Walker B; other site 360105001340 D-loop; other site 360105001341 H-loop/switch region; other site 360105001342 Smr domain; Region: Smr; pfam01713 360105001343 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 360105001344 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 360105001345 metal binding site [ion binding]; metal-binding site 360105001346 dimer interface [polypeptide binding]; other site 360105001347 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 360105001348 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 360105001349 pantothenate kinase; Reviewed; Region: PRK13333 360105001350 PQQ-like domain; Region: PQQ_2; pfam13360 360105001351 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 360105001352 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 360105001353 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 360105001354 Walker A motif; other site 360105001355 ATP binding site [chemical binding]; other site 360105001356 Walker B motif; other site 360105001357 Colicin V production protein; Region: Colicin_V; pfam02674 360105001358 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 360105001359 metal binding site 2 [ion binding]; metal-binding site 360105001360 putative DNA binding helix; other site 360105001361 metal binding site 1 [ion binding]; metal-binding site 360105001362 dimer interface [polypeptide binding]; other site 360105001363 structural Zn2+ binding site [ion binding]; other site 360105001364 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 360105001365 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 360105001366 dimer interface [polypeptide binding]; other site 360105001367 putative anticodon binding site; other site 360105001368 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 360105001369 motif 1; other site 360105001370 active site 360105001371 motif 2; other site 360105001372 motif 3; other site 360105001373 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 360105001374 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 360105001375 dimer interface [polypeptide binding]; other site 360105001376 active site 360105001377 glycine-pyridoxal phosphate binding site [chemical binding]; other site 360105001378 folate binding site [chemical binding]; other site 360105001379 Domain of unknown function (DUF1882); Region: DUF1882; pfam08966 360105001380 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 360105001381 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 360105001382 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 360105001383 shikimate binding site; other site 360105001384 NAD(P) binding site [chemical binding]; other site 360105001385 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 360105001386 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 360105001387 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 360105001388 domain interfaces; other site 360105001389 active site 360105001390 recombination protein RecR; Reviewed; Region: recR; PRK00076 360105001391 RecR protein; Region: RecR; pfam02132 360105001392 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 360105001393 putative active site [active] 360105001394 putative metal-binding site [ion binding]; other site 360105001395 tetramer interface [polypeptide binding]; other site 360105001396 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360105001397 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 360105001398 ATP binding site [chemical binding]; other site 360105001399 Mg2+ binding site [ion binding]; other site 360105001400 G-X-G motif; other site 360105001401 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360105001402 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360105001403 active site 360105001404 phosphorylation site [posttranslational modification] 360105001405 intermolecular recognition site; other site 360105001406 dimerization interface [polypeptide binding]; other site 360105001407 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 360105001408 DNA binding site [nucleotide binding] 360105001409 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 360105001410 dimer interface [polypeptide binding]; other site 360105001411 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 360105001412 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 360105001413 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 360105001414 GIY-YIG motif/motif A; other site 360105001415 active site 360105001416 catalytic site [active] 360105001417 putative DNA binding site [nucleotide binding]; other site 360105001418 metal binding site [ion binding]; metal-binding site 360105001419 UvrB/uvrC motif; Region: UVR; pfam02151 360105001420 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 360105001421 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 360105001422 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 360105001423 GMP synthase; Reviewed; Region: guaA; PRK00074 360105001424 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 360105001425 AMP/PPi binding site [chemical binding]; other site 360105001426 candidate oxyanion hole; other site 360105001427 catalytic triad [active] 360105001428 potential glutamine specificity residues [chemical binding]; other site 360105001429 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 360105001430 ATP Binding subdomain [chemical binding]; other site 360105001431 Ligand Binding sites [chemical binding]; other site 360105001432 Dimerization subdomain; other site 360105001433 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 360105001434 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 360105001435 DNA methylase; Region: N6_N4_Mtase; pfam01555 360105001436 DGQHR domain; Region: DGQHR; TIGR03187 360105001437 DNA phosphorothioation-associated DGQHR protein 1; Region: DGQHR_dnd_1; TIGR04172 360105001438 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 360105001439 AAA ATPase domain; Region: AAA_16; pfam13191 360105001440 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 360105001441 putative active site [active] 360105001442 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 360105001443 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 360105001444 putative substrate translocation pore; other site 360105001445 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 360105001446 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 360105001447 active site 360105001448 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 360105001449 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 360105001450 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 360105001451 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 360105001452 RDD family; Region: RDD; pfam06271 360105001453 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 360105001454 Organic solvent tolerance protein; Region: OstA_C; pfam04453 360105001455 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360105001456 active site 360105001457 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 360105001458 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 360105001459 oligomer interface [polypeptide binding]; other site 360105001460 RNA binding site [nucleotide binding]; other site 360105001461 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 360105001462 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 360105001463 RNase E interface [polypeptide binding]; other site 360105001464 trimer interface [polypeptide binding]; other site 360105001465 active site 360105001466 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 360105001467 putative nucleic acid binding region [nucleotide binding]; other site 360105001468 G-X-X-G motif; other site 360105001469 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 360105001470 RNA binding site [nucleotide binding]; other site 360105001471 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 360105001472 Ligand Binding Site [chemical binding]; other site 360105001473 F0F1 ATP synthase subunit C; Validated; Region: PRK08482 360105001474 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 360105001475 Na2 binding site [ion binding]; other site 360105001476 putative substrate binding site 1 [chemical binding]; other site 360105001477 Na binding site 1 [ion binding]; other site 360105001478 putative substrate binding site 2 [chemical binding]; other site 360105001479 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 360105001480 Na2 binding site [ion binding]; other site 360105001481 putative substrate binding site 1 [chemical binding]; other site 360105001482 Na binding site 1 [ion binding]; other site 360105001483 putative substrate binding site 2 [chemical binding]; other site 360105001484 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 360105001485 Na2 binding site [ion binding]; other site 360105001486 putative substrate binding site 1 [chemical binding]; other site 360105001487 Na binding site 1 [ion binding]; other site 360105001488 putative substrate binding site 2 [chemical binding]; other site 360105001489 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 360105001490 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 360105001491 DctM-like transporters; Region: DctM; pfam06808 360105001492 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 360105001493 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 360105001494 active site 360105001495 catalytic residues [active] 360105001496 metal binding site [ion binding]; metal-binding site 360105001497 homodimer binding site [polypeptide binding]; other site 360105001498 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 360105001499 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 360105001500 carboxyltransferase (CT) interaction site; other site 360105001501 biotinylation site [posttranslational modification]; other site 360105001502 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 360105001503 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 360105001504 active site 360105001505 substrate-binding site [chemical binding]; other site 360105001506 metal-binding site [ion binding] 360105001507 ATP binding site [chemical binding]; other site 360105001508 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 360105001509 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 360105001510 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 360105001511 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 360105001512 aspartate racemase; Region: asp_race; TIGR00035 360105001513 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 360105001514 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 360105001515 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 360105001516 active site 360105001517 hypothetical protein; Provisional; Region: PRK12378 360105001518 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360105001519 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 360105001520 Coenzyme A binding pocket [chemical binding]; other site 360105001521 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 360105001522 metal-binding site [ion binding] 360105001523 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 360105001524 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 360105001525 metal-binding site [ion binding] 360105001526 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 360105001527 Soluble P-type ATPase [General function prediction only]; Region: COG4087 360105001528 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 360105001529 Major Facilitator Superfamily; Region: MFS_1; pfam07690 360105001530 putative substrate translocation pore; other site 360105001531 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 360105001532 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 360105001533 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 360105001534 Cupin domain; Region: Cupin_2; cl17218 360105001535 argininosuccinate lyase; Provisional; Region: PRK00855 360105001536 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 360105001537 active sites [active] 360105001538 tetramer interface [polypeptide binding]; other site 360105001539 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 360105001540 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360105001541 dimer interface [polypeptide binding]; other site 360105001542 putative CheW interface [polypeptide binding]; other site 360105001543 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 360105001544 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 360105001545 nucleotide binding site/active site [active] 360105001546 HIT family signature motif; other site 360105001547 catalytic residue [active] 360105001548 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 360105001549 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 360105001550 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 360105001551 dimer interface [polypeptide binding]; other site 360105001552 motif 1; other site 360105001553 active site 360105001554 motif 2; other site 360105001555 motif 3; other site 360105001556 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 360105001557 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 360105001558 putative tRNA-binding site [nucleotide binding]; other site 360105001559 B3/4 domain; Region: B3_4; pfam03483 360105001560 tRNA synthetase B5 domain; Region: B5; smart00874 360105001561 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 360105001562 dimer interface [polypeptide binding]; other site 360105001563 motif 1; other site 360105001564 motif 3; other site 360105001565 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 360105001566 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 360105001567 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 360105001568 hinge; other site 360105001569 active site 360105001570 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 360105001571 LytB protein; Region: LYTB; pfam02401 360105001572 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 360105001573 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 360105001574 RNA binding site [nucleotide binding]; other site 360105001575 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 360105001576 RNA binding site [nucleotide binding]; other site 360105001577 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 360105001578 RNA binding site [nucleotide binding]; other site 360105001579 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 360105001580 RNA binding site [nucleotide binding]; other site 360105001581 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 360105001582 RNA binding site [nucleotide binding]; other site 360105001583 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 360105001584 RNA binding site [nucleotide binding]; other site 360105001585 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 360105001586 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 360105001587 ligand binding site [chemical binding]; other site 360105001588 NAD binding site [chemical binding]; other site 360105001589 dimerization interface [polypeptide binding]; other site 360105001590 catalytic site [active] 360105001591 ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-like; cd04879 360105001592 L-serine binding site [chemical binding]; other site 360105001593 elongation factor P; Validated; Region: PRK00529 360105001594 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 360105001595 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 360105001596 RNA binding site [nucleotide binding]; other site 360105001597 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 360105001598 RNA binding site [nucleotide binding]; other site 360105001599 Domain of unknown function (DUF4304); Region: DUF4304; pfam14137 360105001600 DJ-1 family protein; Region: not_thiJ; TIGR01383 360105001601 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 360105001602 conserved cys residue [active] 360105001603 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 360105001604 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360105001605 active site 360105001606 nucleotide binding site [chemical binding]; other site 360105001607 HIGH motif; other site 360105001608 KMSKS motif; other site 360105001609 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 360105001610 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 360105001611 active site 360105001612 PHP Thumb interface [polypeptide binding]; other site 360105001613 metal binding site [ion binding]; metal-binding site 360105001614 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 360105001615 generic binding surface II; other site 360105001616 generic binding surface I; other site 360105001617 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 360105001618 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 360105001619 catalytic triad [active] 360105001620 conserved cis-peptide bond; other site 360105001621 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 360105001622 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 360105001623 dimer interface [polypeptide binding]; other site 360105001624 phosphorylation site [posttranslational modification] 360105001625 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 360105001626 ATP binding site [chemical binding]; other site 360105001627 Mg2+ binding site [ion binding]; other site 360105001628 G-X-G motif; other site 360105001629 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 360105001630 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 360105001631 thiamine phosphate binding site [chemical binding]; other site 360105001632 active site 360105001633 pyrophosphate binding site [ion binding]; other site 360105001634 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 360105001635 dimer interface [polypeptide binding]; other site 360105001636 substrate binding site [chemical binding]; other site 360105001637 ATP binding site [chemical binding]; other site 360105001638 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 360105001639 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 360105001640 substrate binding pocket [chemical binding]; other site 360105001641 membrane-bound complex binding site; other site 360105001642 hinge residues; other site 360105001643 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 360105001644 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 360105001645 Walker A/P-loop; other site 360105001646 ATP binding site [chemical binding]; other site 360105001647 Q-loop/lid; other site 360105001648 ABC transporter signature motif; other site 360105001649 Walker B; other site 360105001650 D-loop; other site 360105001651 H-loop/switch region; other site 360105001652 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 360105001653 dimer interface [polypeptide binding]; other site 360105001654 conserved gate region; other site 360105001655 putative PBP binding loops; other site 360105001656 ABC-ATPase subunit interface; other site 360105001657 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 360105001658 Na binding site [ion binding]; other site 360105001659 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 360105001660 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 360105001661 active site 360105001662 metal binding site [ion binding]; metal-binding site 360105001663 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 360105001664 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 360105001665 FMN binding site [chemical binding]; other site 360105001666 substrate binding site [chemical binding]; other site 360105001667 putative catalytic residue [active] 360105001668 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 360105001669 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 360105001670 active site 360105001671 HIGH motif; other site 360105001672 dimer interface [polypeptide binding]; other site 360105001673 KMSKS motif; other site 360105001674 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 360105001675 RNA binding surface [nucleotide binding]; other site 360105001676 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 360105001677 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 360105001678 Zn2+ binding site [ion binding]; other site 360105001679 Mg2+ binding site [ion binding]; other site 360105001680 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 360105001681 synthetase active site [active] 360105001682 NTP binding site [chemical binding]; other site 360105001683 metal binding site [ion binding]; metal-binding site 360105001684 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 360105001685 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 360105001686 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 360105001687 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 360105001688 putative nucleotide binding site [chemical binding]; other site 360105001689 uridine monophosphate binding site [chemical binding]; other site 360105001690 homohexameric interface [polypeptide binding]; other site 360105001691 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 360105001692 Peptidase family M23; Region: Peptidase_M23; pfam01551 360105001693 FtsX-like permease family; Region: FtsX; pfam02687 360105001694 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 360105001695 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 360105001696 Walker A/P-loop; other site 360105001697 ATP binding site [chemical binding]; other site 360105001698 Q-loop/lid; other site 360105001699 ABC transporter signature motif; other site 360105001700 Walker B; other site 360105001701 D-loop; other site 360105001702 H-loop/switch region; other site 360105001703 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 360105001704 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 360105001705 RNA binding surface [nucleotide binding]; other site 360105001706 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 360105001707 active site 360105001708 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 360105001709 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 360105001710 dimer interface [polypeptide binding]; other site 360105001711 substrate binding site [chemical binding]; other site 360105001712 metal binding sites [ion binding]; metal-binding site 360105001713 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 360105001714 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 360105001715 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 360105001716 phosphate binding site [ion binding]; other site 360105001717 L-lactate permease; Region: Lactate_perm; cl00701 360105001718 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 360105001719 adenylate kinase; Reviewed; Region: adk; PRK00279 360105001720 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 360105001721 AMP-binding site [chemical binding]; other site 360105001722 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 360105001723 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: pnk; PRK14077 360105001724 ATP-NAD kinase; Region: NAD_kinase; pfam01513 360105001725 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360105001726 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 360105001727 active site 360105001728 phosphorylation site [posttranslational modification] 360105001729 intermolecular recognition site; other site 360105001730 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360105001731 active site 360105001732 phosphorylation site [posttranslational modification] 360105001733 intermolecular recognition site; other site 360105001734 dimerization interface [polypeptide binding]; other site 360105001735 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360105001736 metal binding site [ion binding]; metal-binding site 360105001737 active site 360105001738 I-site; other site 360105001739 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 360105001740 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 360105001741 active site 360105001742 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 360105001743 N-acetyl-D-glucosamine binding site [chemical binding]; other site 360105001744 catalytic residue [active] 360105001745 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 360105001746 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 360105001747 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 360105001748 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 360105001749 Sporulation related domain; Region: SPOR; pfam05036 360105001750 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 360105001751 putative active site pocket [active] 360105001752 4-fold oligomerization interface [polypeptide binding]; other site 360105001753 metal binding residues [ion binding]; metal-binding site 360105001754 3-fold/trimer interface [polypeptide binding]; other site 360105001755 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 360105001756 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 360105001757 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 360105001758 OstA-like protein; Region: OstA; pfam03968 360105001759 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 360105001760 G1 box; other site 360105001761 GTP/Mg2+ binding site [chemical binding]; other site 360105001762 Switch I region; other site 360105001763 G2 box; other site 360105001764 G3 box; other site 360105001765 Switch II region; other site 360105001766 G4 box; other site 360105001767 G5 box; other site 360105001768 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 360105001769 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360105001770 Coenzyme A binding pocket [chemical binding]; other site 360105001771 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 360105001772 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 360105001773 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 360105001774 metal-binding heat shock protein; Provisional; Region: PRK00016 360105001775 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 360105001776 Ligand Binding Site [chemical binding]; other site 360105001777 hydroxylamine reductase; Provisional; Region: PRK12310 360105001778 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 360105001779 ACS interaction site; other site 360105001780 CODH interaction site; other site 360105001781 metal cluster binding site [ion binding]; other site 360105001782 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 360105001783 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 360105001784 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 360105001785 active site 360105001786 HIGH motif; other site 360105001787 KMSKS motif; other site 360105001788 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 360105001789 tRNA binding surface [nucleotide binding]; other site 360105001790 anticodon binding site; other site 360105001791 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 360105001792 dimer interface [polypeptide binding]; other site 360105001793 putative tRNA-binding site [nucleotide binding]; other site 360105001794 fructose-1,6-bisphosphatase; Provisional; Region: PRK09293 360105001795 active site 360105001796 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 360105001797 Walker A motif; other site 360105001798 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 360105001799 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 360105001800 N-acetyl-D-glucosamine binding site [chemical binding]; other site 360105001801 catalytic residue [active] 360105001802 YGGT family; Region: YGGT; pfam02325 360105001803 glutamylglutaminyl-tRNA synthetase; Provisional; Region: PRK12410 360105001804 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360105001805 active site 360105001806 HIGH motif; other site 360105001807 nucleotide binding site [chemical binding]; other site 360105001808 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 360105001809 active site 360105001810 KMSKS motif; other site 360105001811 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 360105001812 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 360105001813 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 360105001814 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 360105001815 ligand binding site [chemical binding]; other site 360105001816 flexible hinge region; other site 360105001817 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 360105001818 non-specific DNA interactions [nucleotide binding]; other site 360105001819 DNA binding site [nucleotide binding] 360105001820 sequence specific DNA binding site [nucleotide binding]; other site 360105001821 putative cAMP binding site [chemical binding]; other site 360105001822 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 360105001823 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 360105001824 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 360105001825 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 360105001826 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 360105001827 putative active site [active] 360105001828 putative metal binding site [ion binding]; other site 360105001829 phosphatidylserine decarboxylase; Provisional; Region: PRK03934 360105001830 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3477 360105001831 GTP-binding protein YchF; Reviewed; Region: PRK09601 360105001832 YchF GTPase; Region: YchF; cd01900 360105001833 G1 box; other site 360105001834 GTP/Mg2+ binding site [chemical binding]; other site 360105001835 Switch I region; other site 360105001836 G2 box; other site 360105001837 Switch II region; other site 360105001838 G3 box; other site 360105001839 G4 box; other site 360105001840 G5 box; other site 360105001841 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 360105001842 multifunctional aminopeptidase A; Provisional; Region: PRK00913 360105001843 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 360105001844 interface (dimer of trimers) [polypeptide binding]; other site 360105001845 Substrate-binding/catalytic site; other site 360105001846 Zn-binding sites [ion binding]; other site 360105001847 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 360105001848 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 360105001849 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360105001850 active site 360105001851 Protein of unknown function (DUF972); Region: DUF972; pfam06156 360105001852 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 360105001853 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 360105001854 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 360105001855 Peptidase family M50; Region: Peptidase_M50; pfam02163 360105001856 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 360105001857 active site 360105001858 putative substrate binding region [chemical binding]; other site 360105001859 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 360105001860 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 360105001861 Catalytic site [active] 360105001862 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 360105001863 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14191 360105001864 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 360105001865 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 360105001866 homodimer interface [polypeptide binding]; other site 360105001867 NADP binding site [chemical binding]; other site 360105001868 substrate binding site [chemical binding]; other site 360105001869 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 360105001870 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 360105001871 inhibitor-cofactor binding pocket; inhibition site 360105001872 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360105001873 catalytic residue [active] 360105001874 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 360105001875 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 360105001876 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 360105001877 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 360105001878 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 360105001879 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 360105001880 dimerization interface [polypeptide binding]; other site 360105001881 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 360105001882 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360105001883 dimer interface [polypeptide binding]; other site 360105001884 putative CheW interface [polypeptide binding]; other site 360105001885 CheB methylesterase; Region: CheB_methylest; pfam01339 360105001886 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 360105001887 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 360105001888 Uncharacterized conserved protein [Function unknown]; Region: COG2353 360105001889 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 360105001890 H+ Antiporter protein; Region: 2A0121; TIGR00900 360105001891 putative substrate translocation pore; other site 360105001892 NlpE N-terminal domain; Region: NlpE; pfam04170 360105001893 NlpE N-terminal domain; Region: NlpE; pfam04170 360105001894 hypothetical protein; Provisional; Region: PRK08445 360105001895 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 360105001896 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 360105001897 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 360105001898 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 360105001899 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 360105001900 generic binding surface II; other site 360105001901 ssDNA binding site; other site 360105001902 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 360105001903 ATP binding site [chemical binding]; other site 360105001904 putative Mg++ binding site [ion binding]; other site 360105001905 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 360105001906 nucleotide binding region [chemical binding]; other site 360105001907 ATP-binding site [chemical binding]; other site 360105001908 SPFH domain / Band 7 family; Region: Band_7; pfam01145 360105001909 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 360105001910 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 360105001911 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 360105001912 Walker A/P-loop; other site 360105001913 ATP binding site [chemical binding]; other site 360105001914 Q-loop/lid; other site 360105001915 ABC transporter signature motif; other site 360105001916 Walker B; other site 360105001917 D-loop; other site 360105001918 H-loop/switch region; other site 360105001919 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 360105001920 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 360105001921 ABC-ATPase subunit interface; other site 360105001922 dimer interface [polypeptide binding]; other site 360105001923 putative PBP binding regions; other site 360105001924 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 360105001925 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 360105001926 putative ligand binding residues [chemical binding]; other site 360105001927 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 360105001928 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 360105001929 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 360105001930 putative ligand binding residues [chemical binding]; other site 360105001931 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 360105001932 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 360105001933 N-terminal plug; other site 360105001934 ligand-binding site [chemical binding]; other site 360105001935 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 360105001936 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 360105001937 putative FMN binding site [chemical binding]; other site 360105001938 Predicted peptidase [General function prediction only]; Region: COG4099 360105001939 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 360105001940 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 360105001941 Sel1-like repeats; Region: SEL1; smart00671 360105001942 Sel1 repeat; Region: Sel1; cl02723 360105001943 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 360105001944 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 360105001945 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 360105001946 30S subunit binding site; other site 360105001947 flagellar assembly protein FliW; Provisional; Region: PRK13282 360105001948 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 360105001949 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 360105001950 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 360105001951 Walker A motif; other site 360105001952 ATP binding site [chemical binding]; other site 360105001953 Walker B motif; other site 360105001954 arginine finger; other site 360105001955 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 360105001956 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 360105001957 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 360105001958 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 360105001959 dimer interface [polypeptide binding]; other site 360105001960 ssDNA binding site [nucleotide binding]; other site 360105001961 tetramer (dimer of dimers) interface [polypeptide binding]; other site 360105001962 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 360105001963 DNA polymerase III subunit delta; Validated; Region: PRK08487 360105001964 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 360105001965 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 360105001966 RNB domain; Region: RNB; pfam00773 360105001967 HDOD domain; Region: HDOD; pfam08668 360105001968 ketol-acid reductoisomerase; Provisional; Region: PRK05479 360105001969 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 360105001970 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 360105001971 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 360105001972 NodB motif; other site 360105001973 putative active site [active] 360105001974 putative catalytic site [active] 360105001975 Zn binding site [ion binding]; other site 360105001976 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 360105001977 DNA protecting protein DprA; Region: dprA; TIGR00732 360105001978 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 360105001979 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 360105001980 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 360105001981 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 360105001982 sec-independent translocase; Provisional; Region: PRK04098 360105001983 coproporphyrinogen III oxidase; Provisional; Region: PRK08446 360105001984 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 360105001985 putative active site [active] 360105001986 Ap4A binding site [chemical binding]; other site 360105001987 nudix motif; other site 360105001988 putative metal binding site [ion binding]; other site 360105001989 aspartate kinase; Reviewed; Region: PRK06635 360105001990 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 360105001991 putative nucleotide binding site [chemical binding]; other site 360105001992 putative catalytic residues [active] 360105001993 putative Mg ion binding site [ion binding]; other site 360105001994 putative aspartate binding site [chemical binding]; other site 360105001995 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 360105001996 putative allosteric regulatory site; other site 360105001997 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 360105001998 DNA replication regulator; Region: HobA; pfam12163 360105001999 DNA polymerase III subunit delta'; Validated; Region: PRK08485 360105002000 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 360105002001 dihydropteroate synthase; Region: DHPS; TIGR01496 360105002002 substrate binding pocket [chemical binding]; other site 360105002003 dimer interface [polypeptide binding]; other site 360105002004 inhibitor binding site; inhibition site 360105002005 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 360105002006 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 360105002007 nucleotide binding pocket [chemical binding]; other site 360105002008 K-X-D-G motif; other site 360105002009 catalytic site [active] 360105002010 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 360105002011 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 360105002012 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 360105002013 Dimer interface [polypeptide binding]; other site 360105002014 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 360105002015 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 360105002016 RNA binding surface [nucleotide binding]; other site 360105002017 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 360105002018 S-adenosylmethionine binding site [chemical binding]; other site 360105002019 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 360105002020 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 360105002021 active site 360105002022 Riboflavin kinase; Region: Flavokinase; pfam01687 360105002023 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 360105002024 S-adenosylmethionine binding site [chemical binding]; other site 360105002025 SnoaL-like domain; Region: SnoaL_2; pfam12680 360105002026 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 360105002027 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 360105002028 N-terminal plug; other site 360105002029 ligand-binding site [chemical binding]; other site 360105002030 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 360105002031 putative ligand binding residues [chemical binding]; other site 360105002032 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 360105002033 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 360105002034 16S/18S rRNA binding site [nucleotide binding]; other site 360105002035 S13e-L30e interaction site [polypeptide binding]; other site 360105002036 25S rRNA binding site [nucleotide binding]; other site 360105002037 Rrf2 family protein; Region: rrf2_super; TIGR00738 360105002038 Transcriptional regulator; Region: Rrf2; pfam02082 360105002039 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 360105002040 FHIPEP family; Region: FHIPEP; pfam00771 360105002041 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 360105002042 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 360105002043 Sel1 repeat; Region: Sel1; cl02723 360105002044 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 360105002045 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 360105002046 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 360105002047 dihydroorotase; Validated; Region: pyrC; PRK09357 360105002048 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 360105002049 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 360105002050 active site 360105002051 heat-inducible transcription repressor; Provisional; Region: PRK03911 360105002052 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 360105002053 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 360105002054 dimer interface [polypeptide binding]; other site 360105002055 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 360105002056 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 360105002057 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 360105002058 nucleotide binding site [chemical binding]; other site 360105002059 NEF interaction site [polypeptide binding]; other site 360105002060 SBD interface [polypeptide binding]; other site 360105002061 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 360105002062 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 360105002063 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 360105002064 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 360105002065 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 360105002066 DsbD alpha interface [polypeptide binding]; other site 360105002067 catalytic residues [active] 360105002068 malate dehydrogenase; Provisional; Region: PRK13529 360105002069 L-aspartate oxidase; Provisional; Region: PRK06175 360105002070 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 360105002071 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 360105002072 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360105002073 dimer interface [polypeptide binding]; other site 360105002074 phosphorylation site [posttranslational modification] 360105002075 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 360105002076 ATP binding site [chemical binding]; other site 360105002077 Mg2+ binding site [ion binding]; other site 360105002078 G-X-G motif; other site 360105002079 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360105002080 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360105002081 active site 360105002082 phosphorylation site [posttranslational modification] 360105002083 intermolecular recognition site; other site 360105002084 dimerization interface [polypeptide binding]; other site 360105002085 DNA binding site [nucleotide binding] 360105002086 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 360105002087 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 360105002088 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 360105002089 hypothetical protein; Provisional; Region: PRK10410 360105002090 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 360105002091 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 360105002092 Ligand binding site; other site 360105002093 oligomer interface; other site 360105002094 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 360105002095 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 360105002096 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360105002097 catalytic residue [active] 360105002098 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 360105002099 feedback inhibition sensing region; other site 360105002100 homohexameric interface [polypeptide binding]; other site 360105002101 nucleotide binding site [chemical binding]; other site 360105002102 N-acetyl-L-glutamate binding site [chemical binding]; other site 360105002103 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 360105002104 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 360105002105 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 360105002106 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 360105002107 inhibitor-cofactor binding pocket; inhibition site 360105002108 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360105002109 catalytic residue [active] 360105002110 NAD synthetase; Provisional; Region: PRK13980 360105002111 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 360105002112 homodimer interface [polypeptide binding]; other site 360105002113 NAD binding pocket [chemical binding]; other site 360105002114 ATP binding pocket [chemical binding]; other site 360105002115 Mg binding site [ion binding]; other site 360105002116 active-site loop [active] 360105002117 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 360105002118 Campylobacter major outer membrane protein; Region: Campylo_MOMP; pfam05538 360105002119 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 360105002120 active site 2 [active] 360105002121 active site 1 [active] 360105002122 Methyltransferase domain; Region: Methyltransf_23; pfam13489 360105002123 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 360105002124 S-adenosylmethionine binding site [chemical binding]; other site 360105002125 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 360105002126 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 360105002127 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 360105002128 metal-binding site [ion binding] 360105002129 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 360105002130 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 360105002131 metal binding site [ion binding]; metal-binding site 360105002132 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 360105002133 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 360105002134 minor groove reading motif; other site 360105002135 helix-hairpin-helix signature motif; other site 360105002136 substrate binding pocket [chemical binding]; other site 360105002137 active site 360105002138 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 360105002139 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 360105002140 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 360105002141 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 360105002142 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 360105002143 active site 360105002144 intersubunit interface [polypeptide binding]; other site 360105002145 zinc binding site [ion binding]; other site 360105002146 Na+ binding site [ion binding]; other site 360105002147 hypothetical protein; Validated; Region: PRK09039 360105002148 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 360105002149 ligand binding site [chemical binding]; other site 360105002150 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 360105002151 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 360105002152 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360105002153 catalytic residue [active] 360105002154 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 360105002155 histidinol dehydrogenase; Region: hisD; TIGR00069 360105002156 NAD binding site [chemical binding]; other site 360105002157 dimerization interface [polypeptide binding]; other site 360105002158 product binding site; other site 360105002159 substrate binding site [chemical binding]; other site 360105002160 zinc binding site [ion binding]; other site 360105002161 catalytic residues [active] 360105002162 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 360105002163 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 360105002164 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 360105002165 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 360105002166 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 360105002167 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 360105002168 DNA binding residues [nucleotide binding] 360105002169 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 360105002170 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 360105002171 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 360105002172 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 360105002173 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 360105002174 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 360105002175 AzlC protein; Region: AzlC; pfam03591 360105002176 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 360105002177 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 360105002178 active site 360105002179 homodimer interface [polypeptide binding]; other site 360105002180 homotetramer interface [polypeptide binding]; other site 360105002181 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 360105002182 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 360105002183 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 360105002184 substrate binding site [chemical binding]; other site 360105002185 tartrate dehydrogenase; Region: TTC; TIGR02089 360105002186 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 360105002187 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 360105002188 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 360105002189 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 360105002190 active site 360105002191 NTP binding site [chemical binding]; other site 360105002192 metal binding triad [ion binding]; metal-binding site 360105002193 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 360105002194 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 360105002195 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 360105002196 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 360105002197 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 360105002198 putative active site [active] 360105002199 putative substrate binding site [chemical binding]; other site 360105002200 putative cosubstrate binding site; other site 360105002201 catalytic site [active] 360105002202 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 360105002203 putative catalytic site [active] 360105002204 putative phosphate binding site [ion binding]; other site 360105002205 putative metal binding site [ion binding]; other site 360105002206 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 360105002207 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 360105002208 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 360105002209 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 360105002210 active site 360105002211 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 360105002212 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 360105002213 Soluble P-type ATPase [General function prediction only]; Region: COG4087 360105002214 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 360105002215 metal binding site 2 [ion binding]; metal-binding site 360105002216 putative DNA binding helix; other site 360105002217 metal binding site 1 [ion binding]; metal-binding site 360105002218 dimer interface [polypeptide binding]; other site 360105002219 structural Zn2+ binding site [ion binding]; other site 360105002220 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 360105002221 putative amphipathic alpha helix; other site 360105002222 Predicted membrane protein [Function unknown]; Region: COG2860 360105002223 UPF0126 domain; Region: UPF0126; pfam03458 360105002224 UPF0126 domain; Region: UPF0126; pfam03458 360105002225 acetylornithine aminotransferase; Provisional; Region: PRK02627 360105002226 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 360105002227 inhibitor-cofactor binding pocket; inhibition site 360105002228 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360105002229 catalytic residue [active] 360105002230 Uncharacterized conserved protein [Function unknown]; Region: COG1565 360105002231 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 360105002232 putative deacylase active site [active] 360105002233 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK08455 360105002234 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 360105002235 Autotransporter beta-domain; Region: Autotransporter; smart00869 360105002236 DNA repair protein RadA; Provisional; Region: PRK11823 360105002237 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 360105002238 Walker A motif/ATP binding site; other site 360105002239 ATP binding site [chemical binding]; other site 360105002240 Walker B motif; other site 360105002241 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 360105002242 VanZ like family; Region: VanZ; cl01971 360105002243 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 360105002244 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 360105002245 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 360105002246 P loop; other site 360105002247 GTP binding site [chemical binding]; other site 360105002248 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 360105002249 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 360105002250 catalytic residues [active] 360105002251 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 360105002252 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 360105002253 phosphodiesterase; Provisional; Region: PRK12704 360105002254 KH domain; Region: KH_1; pfam00013 360105002255 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 360105002256 Zn2+ binding site [ion binding]; other site 360105002257 Mg2+ binding site [ion binding]; other site 360105002258 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cl01109 360105002259 putative amphipathic alpha helix; other site 360105002260 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 360105002261 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 360105002262 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 360105002263 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 360105002264 Helix-hairpin-helix motif; Region: HHH; pfam00633 360105002265 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 360105002266 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 360105002267 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 360105002268 Cache domain; Region: Cache_1; pfam02743 360105002269 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360105002270 dimer interface [polypeptide binding]; other site 360105002271 putative CheW interface [polypeptide binding]; other site 360105002272 Predicted membrane protein [Function unknown]; Region: COG2510 360105002273 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 360105002274 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4884 360105002275 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 360105002276 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 360105002277 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 360105002278 DNA binding site [nucleotide binding] 360105002279 active site 360105002280 Aconitate B N-terminal domain; Region: Aconitase_B_N; pfam11791 360105002281 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 360105002282 substrate binding site [chemical binding]; other site 360105002283 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 360105002284 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 360105002285 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 360105002286 substrate binding site [chemical binding]; other site 360105002287 ligand binding site [chemical binding]; other site 360105002288 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 360105002289 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 360105002290 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 360105002291 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 360105002292 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 360105002293 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 360105002294 putative NAD(P) binding site [chemical binding]; other site 360105002295 homotetramer interface [polypeptide binding]; other site 360105002296 homodimer interface [polypeptide binding]; other site 360105002297 active site 360105002298 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 360105002299 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 360105002300 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 360105002301 S-adenosylmethionine binding site [chemical binding]; other site 360105002302 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 360105002303 threonine dehydratase; Provisional; Region: PRK08526 360105002304 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 360105002305 tetramer interface [polypeptide binding]; other site 360105002306 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360105002307 catalytic residue [active] 360105002308 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 360105002309 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 360105002310 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 360105002311 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 360105002312 dimerization interface 3.5A [polypeptide binding]; other site 360105002313 active site 360105002314 Predicted permeases [General function prediction only]; Region: COG0795 360105002315 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 360105002316 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 360105002317 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 360105002318 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 360105002319 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 360105002320 Flavoprotein; Region: Flavoprotein; pfam02441 360105002321 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 360105002322 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14359 360105002323 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 360105002324 Substrate binding site; other site 360105002325 Mg++ binding site; other site 360105002326 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 360105002327 active site 360105002328 substrate binding site [chemical binding]; other site 360105002329 CoA binding site [chemical binding]; other site 360105002330 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 360105002331 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 360105002332 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 360105002333 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 360105002334 ligand binding site [chemical binding]; other site 360105002335 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 360105002336 Outer membrane efflux protein; Region: OEP; pfam02321 360105002337 Outer membrane efflux protein; Region: OEP; pfam02321 360105002338 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 360105002339 HlyD family secretion protein; Region: HlyD_3; pfam13437 360105002340 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 360105002341 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 360105002342 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 360105002343 NAD(P) binding site [chemical binding]; other site 360105002344 catalytic residues [active] 360105002345 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 360105002346 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360105002347 dimer interface [polypeptide binding]; other site 360105002348 phosphorylation site [posttranslational modification] 360105002349 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 360105002350 ATP binding site [chemical binding]; other site 360105002351 Mg2+ binding site [ion binding]; other site 360105002352 G-X-G motif; other site 360105002353 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360105002354 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360105002355 active site 360105002356 phosphorylation site [posttranslational modification] 360105002357 intermolecular recognition site; other site 360105002358 dimerization interface [polypeptide binding]; other site 360105002359 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 360105002360 DNA binding site [nucleotide binding] 360105002361 Predicted permeases [General function prediction only]; Region: COG0679 360105002362 Protein of unknown function (DUF328); Region: DUF328; pfam03883 360105002363 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 360105002364 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 360105002365 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 360105002366 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 360105002367 CRISPR-associated helicase Cas3 [Defense mechanisms]; Region: COG1203 360105002368 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 360105002369 CRISPR-associated protein Cas5, subtype I-B/HMARI; Region: cas_Cas5h; TIGR02592 360105002370 Family of unknown function (DUF694); Region: DUF694; pfam05107 360105002371 CRISPR/Cas system-associated protein Cas8b; Region: Cas8b_I-B; cl09718 360105002372 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 360105002373 lagellar hook-associated protein FlgL; Provisional; Region: PRK14692 360105002374 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 360105002375 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 360105002376 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 360105002377 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 360105002378 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 360105002379 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 360105002380 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 360105002381 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 360105002382 active site 360105002383 Int/Topo IB signature motif; other site 360105002384 DNA binding site [nucleotide binding] 360105002385 Helix-turn-helix domain; Region: HTH_36; pfam13730 360105002386 YcfA-like protein; Region: YcfA; cl00752 360105002387 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 360105002388 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 360105002389 helicase superfamily c-terminal domain; Region: HELICc; smart00490 360105002390 nucleotide binding region [chemical binding]; other site 360105002391 ATP-binding site [chemical binding]; other site 360105002392 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 360105002393 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 360105002394 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 360105002395 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 360105002396 molybdopterin cofactor binding site [chemical binding]; other site 360105002397 substrate binding site [chemical binding]; other site 360105002398 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 360105002399 molybdopterin cofactor binding site; other site 360105002400 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 360105002401 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 360105002402 molybdopterin cofactor binding site [chemical binding]; other site 360105002403 substrate binding site [chemical binding]; other site 360105002404 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 360105002405 molybdopterin cofactor binding site; other site 360105002406 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 360105002407 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 360105002408 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 360105002409 molybdopterin cofactor binding site [chemical binding]; other site 360105002410 substrate binding site [chemical binding]; other site 360105002411 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 360105002412 molybdopterin cofactor binding site; other site 360105002413 Cache domain; Region: Cache_1; pfam02743 360105002414 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360105002415 dimer interface [polypeptide binding]; other site 360105002416 putative CheW interface [polypeptide binding]; other site 360105002417 Cache domain; Region: Cache_1; pfam02743 360105002418 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360105002419 dimer interface [polypeptide binding]; other site 360105002420 putative CheW interface [polypeptide binding]; other site 360105002421 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 360105002422 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360105002423 catalytic residue [active] 360105002424 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 360105002425 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 360105002426 active site 360105002427 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 360105002428 protein binding site [polypeptide binding]; other site 360105002429 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 360105002430 putative substrate binding region [chemical binding]; other site 360105002431 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 360105002432 7-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK08416 360105002433 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360105002434 NAD(P) binding site [chemical binding]; other site 360105002435 active site 360105002436 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 360105002437 dihydrodipicolinate synthase; Region: dapA; TIGR00674 360105002438 dimer interface [polypeptide binding]; other site 360105002439 active site 360105002440 catalytic residue [active] 360105002441 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 360105002442 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 360105002443 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 360105002444 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 360105002445 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 360105002446 quinone interaction residues [chemical binding]; other site 360105002447 active site 360105002448 catalytic residues [active] 360105002449 FMN binding site [chemical binding]; other site 360105002450 substrate binding site [chemical binding]; other site 360105002451 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 360105002452 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 360105002453 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360105002454 Walker A/P-loop; other site 360105002455 ATP binding site [chemical binding]; other site 360105002456 Q-loop/lid; other site 360105002457 ABC transporter signature motif; other site 360105002458 Walker B; other site 360105002459 D-loop; other site 360105002460 H-loop/switch region; other site 360105002461 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 360105002462 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 360105002463 active site 360105002464 HIGH motif; other site 360105002465 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 360105002466 KMSKS motif; other site 360105002467 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 360105002468 tRNA binding surface [nucleotide binding]; other site 360105002469 anticodon binding site; other site 360105002470 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 360105002471 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 360105002472 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 360105002473 Response regulator receiver domain; Region: Response_reg; pfam00072 360105002474 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360105002475 active site 360105002476 phosphorylation site [posttranslational modification] 360105002477 intermolecular recognition site; other site 360105002478 dimerization interface [polypeptide binding]; other site 360105002479 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 360105002480 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360105002481 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 360105002482 ATP binding site [chemical binding]; other site 360105002483 G-X-G motif; other site 360105002484 putative disulfide oxidoreductase; Provisional; Region: PRK04307 360105002485 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 360105002486 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 360105002487 catalytic residues [active] 360105002488 hinge region; other site 360105002489 alpha helical domain; other site 360105002490 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 360105002491 Protein of unknown function (DUF342); Region: DUF342; pfam03961 360105002492 Holliday junction DNA helicase RuvA; Provisional; Region: ruvA; PRK14601 360105002493 RuvA N terminal domain; Region: RuvA_N; pfam01330 360105002494 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 360105002495 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 360105002496 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 360105002497 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 360105002498 ATP-grasp domain; Region: ATP-grasp_4; cl17255 360105002499 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 360105002500 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 360105002501 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 360105002502 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360105002503 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 360105002504 propionate/acetate kinase; Provisional; Region: PRK12379 360105002505 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 360105002506 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 360105002507 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 360105002508 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK08527 360105002509 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 360105002510 PYR/PP interface [polypeptide binding]; other site 360105002511 dimer interface [polypeptide binding]; other site 360105002512 TPP binding site [chemical binding]; other site 360105002513 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 360105002514 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 360105002515 TPP-binding site [chemical binding]; other site 360105002516 dimer interface [polypeptide binding]; other site 360105002517 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 360105002518 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 360105002519 putative valine binding site [chemical binding]; other site 360105002520 dimer interface [polypeptide binding]; other site 360105002521 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 360105002522 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 360105002523 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 360105002524 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 360105002525 trimer interface [polypeptide binding]; other site 360105002526 active site 360105002527 UDP-GlcNAc binding site [chemical binding]; other site 360105002528 lipid binding site [chemical binding]; lipid-binding site 360105002529 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 360105002530 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 360105002531 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 360105002532 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 360105002533 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 360105002534 Permease; Region: Permease; pfam02405 360105002535 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 360105002536 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360105002537 Walker A/P-loop; other site 360105002538 ATP binding site [chemical binding]; other site 360105002539 Q-loop/lid; other site 360105002540 ABC transporter signature motif; other site 360105002541 Walker B; other site 360105002542 D-loop; other site 360105002543 H-loop/switch region; other site 360105002544 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 360105002545 mce related protein; Region: MCE; pfam02470 360105002546 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3400 360105002547 TrkA-C domain; Region: TrkA_C; pfam02080 360105002548 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 360105002549 active site 360105002550 dimer interface [polypeptide binding]; other site 360105002551 metal binding site [ion binding]; metal-binding site 360105002552 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 360105002553 Mechanosensitive ion channel; Region: MS_channel; pfam00924 360105002554 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 360105002555 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 360105002556 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 360105002557 FeS/SAM binding site; other site 360105002558 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 360105002559 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 360105002560 Walker A motif; other site 360105002561 ATP binding site [chemical binding]; other site 360105002562 Walker B motif; other site 360105002563 arginine finger; other site 360105002564 Peptidase family M41; Region: Peptidase_M41; pfam01434 360105002565 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 360105002566 MPT binding site; other site 360105002567 trimer interface [polypeptide binding]; other site 360105002568 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 360105002569 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 360105002570 LysE type translocator; Region: LysE; cl00565 360105002571 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 360105002572 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 360105002573 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 360105002574 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 360105002575 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 360105002576 dimer interface [polypeptide binding]; other site 360105002577 conserved gate region; other site 360105002578 ABC-ATPase subunit interface; other site 360105002579 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 360105002580 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 360105002581 Walker A/P-loop; other site 360105002582 ATP binding site [chemical binding]; other site 360105002583 Q-loop/lid; other site 360105002584 ABC transporter signature motif; other site 360105002585 Walker B; other site 360105002586 D-loop; other site 360105002587 H-loop/switch region; other site 360105002588 NIL domain; Region: NIL; pfam09383 360105002589 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 360105002590 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360105002591 active site 360105002592 HIGH motif; other site 360105002593 nucleotide binding site [chemical binding]; other site 360105002594 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 360105002595 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 360105002596 active site 360105002597 KMSKS motif; other site 360105002598 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 360105002599 tRNA binding surface [nucleotide binding]; other site 360105002600 anticodon binding site; other site 360105002601 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 360105002602 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 360105002603 MG2 domain; Region: A2M_N; pfam01835 360105002604 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 360105002605 surface patch; other site 360105002606 thioester region; other site 360105002607 specificity defining residues; other site 360105002608 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 360105002609 Transglycosylase; Region: Transgly; pfam00912 360105002610 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 360105002611 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 360105002612 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 360105002613 Part of AAA domain; Region: AAA_19; pfam13245 360105002614 Family description; Region: UvrD_C_2; pfam13538 360105002615 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 360105002616 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 360105002617 HlyD family secretion protein; Region: HlyD_3; pfam13437 360105002618 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 360105002619 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 360105002620 Walker A/P-loop; other site 360105002621 ATP binding site [chemical binding]; other site 360105002622 Q-loop/lid; other site 360105002623 ABC transporter signature motif; other site 360105002624 Walker B; other site 360105002625 D-loop; other site 360105002626 H-loop/switch region; other site 360105002627 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 360105002628 FtsX-like permease family; Region: FtsX; pfam02687 360105002629 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 360105002630 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 360105002631 catalytic core [active] 360105002632 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 360105002633 dinuclear metal binding motif [ion binding]; other site 360105002634 Rhomboid family; Region: Rhomboid; pfam01694 360105002635 NlpC/P60 family; Region: NLPC_P60; cl17555 360105002636 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 360105002637 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 360105002638 hinge; other site 360105002639 active site 360105002640 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 360105002641 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 360105002642 dimer interface [polypeptide binding]; other site 360105002643 putative functional site; other site 360105002644 putative MPT binding site; other site 360105002645 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK08515 360105002646 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 360105002647 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 360105002648 Flavoprotein; Region: Flavoprotein; pfam02441 360105002649 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 360105002650 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 360105002651 active site 360105002652 (T/H)XGH motif; other site 360105002653 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 360105002654 thymidylate kinase; Validated; Region: tmk; PRK00698 360105002655 TMP-binding site; other site 360105002656 ATP-binding site [chemical binding]; other site 360105002657 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 360105002658 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 360105002659 dimer interface [polypeptide binding]; other site 360105002660 motif 1; other site 360105002661 active site 360105002662 motif 2; other site 360105002663 motif 3; other site 360105002664 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 360105002665 anticodon binding site; other site 360105002666 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 360105002667 thiS-thiF/thiG interaction site; other site 360105002668 thiazole synthase; Reviewed; Region: thiG; PRK00208 360105002669 phosphate binding site [ion binding]; other site 360105002670 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 360105002671 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 360105002672 FeS/SAM binding site; other site 360105002673 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 360105002674 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 360105002675 thiamine phosphate binding site [chemical binding]; other site 360105002676 active site 360105002677 pyrophosphate binding site [ion binding]; other site 360105002678 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 360105002679 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 360105002680 L-aspartate oxidase; Provisional; Region: PRK06175 360105002681 succinate dehydrogenase or fumarate reductase, flavoprotein subunitGram-negative/mitochondrial subgroup; Region: sdhA_frdA_Gneg; TIGR01812 360105002682 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 360105002683 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 360105002684 2-oxoglutarate-acceptor oxidoreductase subunit OorC; Reviewed; Region: oorC; PRK08441 360105002685 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 360105002686 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 360105002687 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 360105002688 TPP-binding site [chemical binding]; other site 360105002689 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed; Region: oorA; PRK09627 360105002690 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 360105002691 dimer interface [polypeptide binding]; other site 360105002692 PYR/PP interface [polypeptide binding]; other site 360105002693 TPP binding site [chemical binding]; other site 360105002694 substrate binding site [chemical binding]; other site 360105002695 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 360105002696 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 360105002697 CoA binding domain; Region: CoA_binding; smart00881 360105002698 CoA-ligase; Region: Ligase_CoA; pfam00549 360105002699 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 360105002700 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 360105002701 CoA-ligase; Region: Ligase_CoA; pfam00549 360105002702 malate dehydrogenase, NAD-dependent; Region: MalateDH_bact; TIGR01763 360105002703 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 360105002704 NAD(P) binding site [chemical binding]; other site 360105002705 LDH/MDH dimer interface [polypeptide binding]; other site 360105002706 substrate binding site [chemical binding]; other site 360105002707 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 360105002708 proteins similar to Escherichia coli yceG; Region: yceG_like; cl17666 360105002709 dimerization interface [polypeptide binding]; other site 360105002710 Protein of unknown function; Region: DUF3971; pfam13116 360105002711 AsmA-like C-terminal region; Region: AsmA_1; pfam13109 360105002712 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 360105002713 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 360105002714 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 360105002715 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 360105002716 dimerization interface [polypeptide binding]; other site 360105002717 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 360105002718 ATP binding site [chemical binding]; other site 360105002719 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 360105002720 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 360105002721 HupF/HypC family; Region: HupF_HypC; pfam01455 360105002722 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 360105002723 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 360105002724 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 360105002725 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 360105002726 nickel responsive regulator; Provisional; Region: PRK00630 360105002727 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 360105002728 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 360105002729 Acylphosphatase; Region: Acylphosphatase; pfam00708 360105002730 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 360105002731 HypF finger; Region: zf-HYPF; pfam07503 360105002732 HypF finger; Region: zf-HYPF; pfam07503 360105002733 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 360105002734 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 360105002735 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 360105002736 putative substrate-binding site; other site 360105002737 nickel binding site [ion binding]; other site 360105002738 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 360105002739 Ni/Fe-hydrogenase, b-type cytochrome subunit; Region: CytB-hydogenase; TIGR02125 360105002740 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 360105002741 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 360105002742 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 360105002743 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 360105002744 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 360105002745 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 360105002746 Walker A motif; other site 360105002747 ATP binding site [chemical binding]; other site 360105002748 Walker B motif; other site 360105002749 arginine finger; other site 360105002750 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 360105002751 Walker A motif; other site 360105002752 ATP binding site [chemical binding]; other site 360105002753 Walker B motif; other site 360105002754 arginine finger; other site 360105002755 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 360105002756 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 360105002757 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 360105002758 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 360105002759 protein binding site [polypeptide binding]; other site 360105002760 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 360105002761 Catalytic dyad [active] 360105002762 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 360105002763 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 360105002764 ATP binding site [chemical binding]; other site 360105002765 active site 360105002766 substrate binding site [chemical binding]; other site 360105002767 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 360105002768 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 360105002769 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 360105002770 putative active site [active] 360105002771 catalytic triad [active] 360105002772 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 360105002773 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 360105002774 putative acyl-acceptor binding pocket; other site 360105002775 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 360105002776 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 360105002777 N-terminal plug; other site 360105002778 ligand-binding site [chemical binding]; other site 360105002779 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 360105002780 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 360105002781 N-terminal plug; other site 360105002782 ligand-binding site [chemical binding]; other site 360105002783 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 360105002784 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 360105002785 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 360105002786 heat shock protein 90; Provisional; Region: PRK05218 360105002787 ATP binding site [chemical binding]; other site 360105002788 Mg2+ binding site [ion binding]; other site 360105002789 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 360105002790 G-X-G motif; other site 360105002791 hypothetical protein; Provisional; Region: PRK00872 360105002792 Protein of unknown function (DUF3237); Region: DUF3237; pfam11578 360105002793 HEAT repeats; Region: HEAT_2; pfam13646 360105002794 glutamate racemase; Provisional; Region: PRK00865 360105002795 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 360105002796 active site 360105002797 DNA binding site [nucleotide binding] 360105002798 Int/Topo IB signature motif; other site 360105002799 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 360105002800 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 360105002801 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 360105002802 active site 360105002803 homodimer interface [polypeptide binding]; other site 360105002804 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 360105002805 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 360105002806 HSP70 interaction site [polypeptide binding]; other site 360105002807 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 360105002808 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 360105002809 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 360105002810 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 360105002811 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 360105002812 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 360105002813 Walker A/P-loop; other site 360105002814 ATP binding site [chemical binding]; other site 360105002815 Q-loop/lid; other site 360105002816 ABC transporter signature motif; other site 360105002817 Walker B; other site 360105002818 D-loop; other site 360105002819 H-loop/switch region; other site 360105002820 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 360105002821 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 360105002822 RNA binding surface [nucleotide binding]; other site 360105002823 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 360105002824 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 360105002825 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 360105002826 argininosuccinate synthase; Provisional; Region: PRK13820 360105002827 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 360105002828 ANP binding site [chemical binding]; other site 360105002829 Substrate Binding Site II [chemical binding]; other site 360105002830 Substrate Binding Site I [chemical binding]; other site 360105002831 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 360105002832 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 360105002833 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 360105002834 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 360105002835 active site 360105002836 HslU subunit interaction site [polypeptide binding]; other site 360105002837 GTPase Era; Reviewed; Region: era; PRK00089 360105002838 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 360105002839 G1 box; other site 360105002840 GTP/Mg2+ binding site [chemical binding]; other site 360105002841 Switch I region; other site 360105002842 G2 box; other site 360105002843 Switch II region; other site 360105002844 G3 box; other site 360105002845 G4 box; other site 360105002846 G5 box; other site 360105002847 KH domain; Region: KH_2; pfam07650 360105002848 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 360105002849 Secretin and TonB N terminus short domain; Region: STN; pfam07660 360105002850 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 360105002851 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 360105002852 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 360105002853 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 360105002854 AAA domain; Region: AAA_22; pfam13401 360105002855 Walker A motif; other site 360105002856 ATP binding site [chemical binding]; other site 360105002857 Walker B motif; other site 360105002858 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 360105002859 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 360105002860 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 360105002861 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 360105002862 Walker A motif; other site 360105002863 ATP binding site [chemical binding]; other site 360105002864 Walker B motif; other site 360105002865 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 360105002866 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 360105002867 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 360105002868 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 360105002869 PAS domain; Region: PAS_9; pfam13426 360105002870 putative active site [active] 360105002871 heme pocket [chemical binding]; other site 360105002872 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360105002873 dimer interface [polypeptide binding]; other site 360105002874 putative CheW interface [polypeptide binding]; other site 360105002875 Yqey-like protein; Region: YqeY; pfam09424 360105002876 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 360105002877 exopolyphosphatase; Region: exo_poly_only; TIGR03706 360105002878 nucleotide binding site [chemical binding]; other site 360105002879 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 360105002880 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 360105002881 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 360105002882 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 360105002883 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 360105002884 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 360105002885 active site residue [active] 360105002886 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 360105002887 nucleotide binding site/active site [active] 360105002888 HIT family signature motif; other site 360105002889 catalytic residue [active] 360105002890 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 360105002891 active site 360105002892 ribulose/triose binding site [chemical binding]; other site 360105002893 phosphate binding site [ion binding]; other site 360105002894 substrate (anthranilate) binding pocket [chemical binding]; other site 360105002895 product (indole) binding pocket [chemical binding]; other site 360105002896 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 360105002897 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 360105002898 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 360105002899 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 360105002900 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 360105002901 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 360105002902 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 360105002903 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 360105002904 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360105002905 Predicted permeases [General function prediction only]; Region: RarD; COG2962 360105002906 Predicted permeases [General function prediction only]; Region: RarD; COG2962 360105002907 Predicted permeases [General function prediction only]; Region: RarD; COG2962 360105002908 EamA-like transporter family; Region: EamA; cl17759 360105002909 LamB/YcsF family; Region: LamB_YcsF; pfam03746 360105002910 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 360105002911 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 360105002912 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 360105002913 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 360105002914 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 360105002915 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 360105002916 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 360105002917 GatB domain; Region: GatB_Yqey; smart00845 360105002918 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 360105002919 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 360105002920 hypothetical protein; Provisional; Region: PRK10621 360105002921 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 360105002922 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 360105002923 E-class dimer interface [polypeptide binding]; other site 360105002924 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 360105002925 P-class dimer interface [polypeptide binding]; other site 360105002926 active site 360105002927 Cu2+ binding site [ion binding]; other site 360105002928 Zn2+ binding site [ion binding]; other site 360105002929 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 360105002930 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 360105002931 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 360105002932 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 360105002933 FlgN protein; Region: FlgN; pfam05130 360105002934 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 360105002935 Rod binding protein; Region: Rod-binding; pfam10135 360105002936 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 360105002937 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 360105002938 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 360105002939 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 360105002940 S-adenosylmethionine binding site [chemical binding]; other site 360105002941 flagellar protein FlaG; Provisional; Region: PRK08452 360105002942 flagellar capping protein; Provisional; Region: PRK12765 360105002943 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 360105002944 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 360105002945 flagellar protein FliS; Validated; Region: fliS; PRK05685 360105002946 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 360105002947 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 360105002948 Permutation of conserved domain; other site 360105002949 active site 360105002950 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 360105002951 thiamine monophosphate kinase; Provisional; Region: PRK05731 360105002952 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 360105002953 ATP binding site [chemical binding]; other site 360105002954 dimerization interface [polypeptide binding]; other site 360105002955 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 360105002956 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 360105002957 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 360105002958 Sulfatase; Region: Sulfatase; cl17466 360105002959 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 360105002960 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 360105002961 domain interfaces; other site 360105002962 active site 360105002963 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 360105002964 prolyl-tRNA synthetase; Provisional; Region: PRK09194 360105002965 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 360105002966 dimer interface [polypeptide binding]; other site 360105002967 motif 1; other site 360105002968 active site 360105002969 motif 2; other site 360105002970 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 360105002971 putative deacylase active site [active] 360105002972 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 360105002973 active site 360105002974 motif 3; other site 360105002975 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 360105002976 anticodon binding site; other site 360105002977 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 360105002978 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 360105002979 tRNA; other site 360105002980 putative tRNA binding site [nucleotide binding]; other site 360105002981 putative NADP binding site [chemical binding]; other site 360105002982 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 360105002983 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 360105002984 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 360105002985 substrate binding pocket [chemical binding]; other site 360105002986 chain length determination region; other site 360105002987 substrate-Mg2+ binding site; other site 360105002988 catalytic residues [active] 360105002989 aspartate-rich region 1; other site 360105002990 active site lid residues [active] 360105002991 aspartate-rich region 2; other site 360105002992 Domain of unknown function (DUF2018); Region: DUF2018; pfam09442 360105002993 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 360105002994 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 360105002995 motif II; other site 360105002996 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 360105002997 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 360105002998 homodimer interface [polypeptide binding]; other site 360105002999 substrate-cofactor binding pocket; other site 360105003000 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360105003001 catalytic residue [active] 360105003002 potassium/proton antiporter; Reviewed; Region: PRK05326 360105003003 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 360105003004 TrkA-C domain; Region: TrkA_C; pfam02080 360105003005 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 360105003006 metal binding site [ion binding]; metal-binding site 360105003007 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360105003008 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 360105003009 dimerization interface [polypeptide binding]; other site 360105003010 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 360105003011 dimer interface [polypeptide binding]; other site 360105003012 phosphorylation site [posttranslational modification] 360105003013 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 360105003014 ATP binding site [chemical binding]; other site 360105003015 Mg2+ binding site [ion binding]; other site 360105003016 G-X-G motif; other site 360105003017 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360105003018 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360105003019 active site 360105003020 phosphorylation site [posttranslational modification] 360105003021 intermolecular recognition site; other site 360105003022 dimerization interface [polypeptide binding]; other site 360105003023 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 360105003024 DNA binding site [nucleotide binding] 360105003025 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 360105003026 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 360105003027 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 360105003028 protein binding site [polypeptide binding]; other site 360105003029 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 360105003030 protein binding site [polypeptide binding]; other site 360105003031 chaperone protein DnaJ; Provisional; Region: PRK14299 360105003032 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 360105003033 HSP70 interaction site [polypeptide binding]; other site 360105003034 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 360105003035 substrate binding site [polypeptide binding]; other site 360105003036 dimer interface [polypeptide binding]; other site 360105003037 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 360105003038 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 360105003039 DNA binding residues [nucleotide binding] 360105003040 putative dimer interface [polypeptide binding]; other site 360105003041 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 360105003042 putative cation:proton antiport protein; Provisional; Region: PRK10669 360105003043 TrkA-N domain; Region: TrkA_N; pfam02254 360105003044 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 360105003045 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 360105003046 FtsX-like permease family; Region: FtsX; pfam02687 360105003047 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 360105003048 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 360105003049 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 360105003050 nucleotide binding region [chemical binding]; other site 360105003051 ATP-binding site [chemical binding]; other site 360105003052 SEC-C motif; Region: SEC-C; pfam02810 360105003053 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 360105003054 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 360105003055 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 360105003056 Walker A motif; other site 360105003057 ATP binding site [chemical binding]; other site 360105003058 Walker B motif; other site 360105003059 Family description; Region: UvrD_C_2; pfam13538 360105003060 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 360105003061 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 360105003062 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 360105003063 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 360105003064 NlpC/P60 family; Region: NLPC_P60; cl17555 360105003065 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 360105003066 Protein of unknown function (DUF523); Region: DUF523; pfam04463 360105003067 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 360105003068 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 360105003069 homodimer interface [polypeptide binding]; other site 360105003070 substrate-cofactor binding pocket; other site 360105003071 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360105003072 catalytic residue [active] 360105003073 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 360105003074 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 360105003075 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 360105003076 S-adenosylmethionine binding site [chemical binding]; other site 360105003077 hypothetical protein; Provisional; Region: PRK05834 360105003078 SurA N-terminal domain; Region: SurA_N_3; cl07813 360105003079 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 360105003080 cell division protein FtsA; Region: ftsA; TIGR01174 360105003081 Cell division protein FtsA; Region: FtsA; smart00842 360105003082 Cell division protein FtsA; Region: FtsA; pfam14450 360105003083 cell division protein FtsZ; Validated; Region: PRK09330 360105003084 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 360105003085 nucleotide binding site [chemical binding]; other site 360105003086 SulA interaction site; other site 360105003087 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 360105003088 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 360105003089 methionine sulfoxide reductase B; Provisional; Region: PRK00222 360105003090 SelR domain; Region: SelR; pfam01641 360105003091 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 360105003092 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 360105003093 purine monophosphate binding site [chemical binding]; other site 360105003094 dimer interface [polypeptide binding]; other site 360105003095 putative catalytic residues [active] 360105003096 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 360105003097 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 360105003098 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 360105003099 putative metal binding site [ion binding]; other site 360105003100 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 360105003101 HSP70 interaction site [polypeptide binding]; other site 360105003102 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 360105003103 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 360105003104 active site 360105003105 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 360105003106 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 360105003107 dimerization interface [polypeptide binding]; other site 360105003108 ATP binding site [chemical binding]; other site 360105003109 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 360105003110 dimerization interface [polypeptide binding]; other site 360105003111 ATP binding site [chemical binding]; other site 360105003112 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 360105003113 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 360105003114 trmE is a tRNA modification GTPase; Region: trmE; cd04164 360105003115 G1 box; other site 360105003116 GTP/Mg2+ binding site [chemical binding]; other site 360105003117 Switch I region; other site 360105003118 G2 box; other site 360105003119 Switch II region; other site 360105003120 G3 box; other site 360105003121 G4 box; other site 360105003122 G5 box; other site 360105003123 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 360105003124 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 360105003125 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 360105003126 G-X-X-G motif; other site 360105003127 membrane protein insertase; Provisional; Region: PRK01318 360105003128 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 360105003129 Haemolytic domain; Region: Haemolytic; pfam01809 360105003130 Ribonuclease P; Region: Ribonuclease_P; pfam00825 360105003131 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_2; cd10034 360105003132 putative uracil binding site [chemical binding]; other site 360105003133 putative active site [active] 360105003134 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 360105003135 Uncharacterized conserved protein [Function unknown]; Region: COG2966 360105003136 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 360105003137 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 360105003138 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 360105003139 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 360105003140 S-adenosylmethionine binding site [chemical binding]; other site 360105003141 Peptidase family M48; Region: Peptidase_M48; pfam01435 360105003142 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 360105003143 Na2 binding site [ion binding]; other site 360105003144 putative substrate binding site 1 [chemical binding]; other site 360105003145 Na binding site 1 [ion binding]; other site 360105003146 putative substrate binding site 2 [chemical binding]; other site 360105003147 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 360105003148 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 360105003149 Sel1-like repeats; Region: SEL1; smart00671 360105003150 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 360105003151 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 360105003152 Walker A/P-loop; other site 360105003153 ATP binding site [chemical binding]; other site 360105003154 Q-loop/lid; other site 360105003155 ABC transporter signature motif; other site 360105003156 Walker B; other site 360105003157 D-loop; other site 360105003158 H-loop/switch region; other site 360105003159 ABC transporter; Region: ABC_tran_2; pfam12848 360105003160 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 360105003161 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 360105003162 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 360105003163 Protein of unknown function DUF45; Region: DUF45; pfam01863 360105003164 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 360105003165 Sel1-like repeats; Region: SEL1; smart00671 360105003166 Sel1-like repeats; Region: SEL1; smart00671 360105003167 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 360105003168 DctM-like transporters; Region: DctM; pfam06808 360105003169 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 360105003170 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 360105003171 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 360105003172 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 360105003173 putative active site; other site 360105003174 catalytic triad [active] 360105003175 putative dimer interface [polypeptide binding]; other site 360105003176 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 360105003177 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 360105003178 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 360105003179 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 360105003180 Cytochrome c [Energy production and conversion]; Region: COG3258 360105003181 Cytochrome c; Region: Cytochrom_C; pfam00034 360105003182 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 360105003183 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 360105003184 dimer interface [polypeptide binding]; other site 360105003185 conserved gate region; other site 360105003186 putative PBP binding loops; other site 360105003187 ABC-ATPase subunit interface; other site 360105003188 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 360105003189 dimer interface [polypeptide binding]; other site 360105003190 conserved gate region; other site 360105003191 ABC-ATPase subunit interface; other site 360105003192 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 360105003193 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 360105003194 Walker A/P-loop; other site 360105003195 ATP binding site [chemical binding]; other site 360105003196 Q-loop/lid; other site 360105003197 ABC transporter signature motif; other site 360105003198 Walker B; other site 360105003199 D-loop; other site 360105003200 H-loop/switch region; other site 360105003201 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 360105003202 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 360105003203 substrate binding pocket [chemical binding]; other site 360105003204 membrane-bound complex binding site; other site 360105003205 hinge residues; other site 360105003206 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 360105003207 Bacterial sugar transferase; Region: Bac_transf; pfam02397 360105003208 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 360105003209 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 360105003210 Substrate binding site; other site 360105003211 Cupin domain; Region: Cupin_2; cl17218 360105003212 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360105003213 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 360105003214 putative ADP-binding pocket [chemical binding]; other site 360105003215 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 360105003216 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360105003217 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 360105003218 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360105003219 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360105003220 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 360105003221 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 360105003222 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 360105003223 Probable Catalytic site; other site 360105003224 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 360105003225 Methyltransferase domain; Region: Methyltransf_23; pfam13489 360105003226 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 360105003227 S-adenosylmethionine binding site [chemical binding]; other site 360105003228 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 360105003229 Methyltransferase domain; Region: Methyltransf_23; pfam13489 360105003230 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 360105003231 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 360105003232 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 360105003233 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 360105003234 inhibitor-cofactor binding pocket; inhibition site 360105003235 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360105003236 catalytic residue [active] 360105003237 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 360105003238 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 360105003239 NAD binding site [chemical binding]; other site 360105003240 substrate binding site [chemical binding]; other site 360105003241 homodimer interface [polypeptide binding]; other site 360105003242 active site 360105003243 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 360105003244 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 360105003245 substrate binding site; other site 360105003246 tetramer interface; other site 360105003247 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 360105003248 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 360105003249 active site 360105003250 substrate binding site [chemical binding]; other site 360105003251 metal binding site [ion binding]; metal-binding site 360105003252 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 360105003253 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 360105003254 ring oligomerisation interface [polypeptide binding]; other site 360105003255 ATP/Mg binding site [chemical binding]; other site 360105003256 stacking interactions; other site 360105003257 hinge regions; other site 360105003258 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 360105003259 oligomerisation interface [polypeptide binding]; other site 360105003260 mobile loop; other site 360105003261 roof hairpin; other site 360105003262 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 360105003263 excinuclease ABC subunit B; Provisional; Region: PRK05298 360105003264 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 360105003265 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 360105003266 ATP binding site [chemical binding]; other site 360105003267 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 360105003268 nucleotide binding region [chemical binding]; other site 360105003269 ATP-binding site [chemical binding]; other site 360105003270 Ultra-violet resistance protein B; Region: UvrB; pfam12344 360105003271 UvrB/uvrC motif; Region: UVR; pfam02151 360105003272 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 360105003273 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 360105003274 primosome assembly protein PriA; Validated; Region: PRK05580 360105003275 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 360105003276 ATP binding site [chemical binding]; other site 360105003277 putative Mg++ binding site [ion binding]; other site 360105003278 helicase superfamily c-terminal domain; Region: HELICc; smart00490 360105003279 ATP-binding site [chemical binding]; other site 360105003280 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 360105003281 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 360105003282 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 360105003283 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 360105003284 Sel1 repeat; Region: Sel1; cl02723 360105003285 Sel1-like repeats; Region: SEL1; smart00671 360105003286 Sel1-like repeats; Region: SEL1; smart00671 360105003287 Competence protein; Region: Competence; pfam03772 360105003288 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 360105003289 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 360105003290 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 360105003291 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 360105003292 Peptidase family M23; Region: Peptidase_M23; pfam01551 360105003293 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 360105003294 MgtE intracellular N domain; Region: MgtE_N; smart00924 360105003295 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 360105003296 Divalent cation transporter; Region: MgtE; pfam01769 360105003297 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 360105003298 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 360105003299 dimer interface [polypeptide binding]; other site 360105003300 ADP-ribose binding site [chemical binding]; other site 360105003301 active site 360105003302 nudix motif; other site 360105003303 metal binding site [ion binding]; metal-binding site 360105003304 polyphosphate kinase; Provisional; Region: PRK05443 360105003305 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 360105003306 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 360105003307 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 360105003308 putative domain interface [polypeptide binding]; other site 360105003309 putative active site [active] 360105003310 catalytic site [active] 360105003311 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 360105003312 putative active site [active] 360105003313 catalytic site [active] 360105003314 DNA polymerase III subunit epsilon; Provisional; Region: PRK08517 360105003315 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 360105003316 active site 360105003317 catalytic site [active] 360105003318 substrate binding site [chemical binding]; other site 360105003319 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 360105003320 Ion channel; Region: Ion_trans_2; pfam07885 360105003321 TrkA-N domain; Region: TrkA_N; pfam02254 360105003322 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 360105003323 TrkA-C domain; Region: TrkA_C; pfam02080 360105003324 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 360105003325 heterotetramer interface [polypeptide binding]; other site 360105003326 active site pocket [active] 360105003327 cleavage site 360105003328 Protein of unknown function (DUF465); Region: DUF465; cl01070 360105003329 serine O-acetyltransferase; Region: cysE; TIGR01172 360105003330 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 360105003331 trimer interface [polypeptide binding]; other site 360105003332 active site 360105003333 substrate binding site [chemical binding]; other site 360105003334 CoA binding site [chemical binding]; other site 360105003335 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 360105003336 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 360105003337 dimer interface [polypeptide binding]; other site 360105003338 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360105003339 catalytic residue [active] 360105003340 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 360105003341 endonuclease III; Region: ENDO3c; smart00478 360105003342 minor groove reading motif; other site 360105003343 helix-hairpin-helix signature motif; other site 360105003344 active site 360105003345 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 360105003346 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 360105003347 Walker A motif; other site 360105003348 ATP binding site [chemical binding]; other site 360105003349 Walker B motif; other site 360105003350 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 360105003351 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 360105003352 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 360105003353 ATP binding site [chemical binding]; other site 360105003354 putative Mg++ binding site [ion binding]; other site 360105003355 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 360105003356 nucleotide binding region [chemical binding]; other site 360105003357 ATP-binding site [chemical binding]; other site 360105003358 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 360105003359 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 360105003360 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360105003361 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360105003362 metal binding site [ion binding]; metal-binding site 360105003363 active site 360105003364 I-site; other site 360105003365 Lipopolysaccharide-assembly; Region: LptE; pfam04390 360105003366 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 360105003367 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 360105003368 HIGH motif; other site 360105003369 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 360105003370 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 360105003371 active site 360105003372 KMSKS motif; other site 360105003373 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 360105003374 tRNA binding surface [nucleotide binding]; other site 360105003375 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 360105003376 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 360105003377 Protein export membrane protein; Region: SecD_SecF; pfam02355 360105003378 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 360105003379 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 360105003380 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 360105003381 apolipoprotein N-acyltransferase; Reviewed; Region: PRK12291 360105003382 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 360105003383 active site 360105003384 catalytic triad [active] 360105003385 Domain of Unknown Function with PDB structure (DUF3861); Region: DUF3861; pfam12977 360105003386 S-adenosylmethionine synthetase; Validated; Region: PRK05250 360105003387 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 360105003388 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 360105003389 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 360105003390 serine/threonine transporter SstT; Provisional; Region: PRK13628 360105003391 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 360105003392 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 360105003393 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 360105003394 active site 360105003395 Zn binding site [ion binding]; other site 360105003396 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 360105003397 Part of AAA domain; Region: AAA_19; pfam13245 360105003398 Family description; Region: UvrD_C_2; pfam13538 360105003399 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 360105003400 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK04099 360105003401 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 360105003402 RNA binding site [nucleotide binding]; other site 360105003403 active site 360105003404 Global regulator protein family; Region: CsrA; pfam02599 360105003405 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK04181 360105003406 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 360105003407 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 360105003408 SmpB-tmRNA interface; other site 360105003409 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 360105003410 catalytic residues [active] 360105003411 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 360105003412 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 360105003413 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 360105003414 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 360105003415 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 360105003416 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK03907 360105003417 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 360105003418 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 360105003419 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 360105003420 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 360105003421 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 360105003422 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 360105003423 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 360105003424 motif 1; other site 360105003425 active site 360105003426 motif 2; other site 360105003427 motif 3; other site 360105003428 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 360105003429 DHHA1 domain; Region: DHHA1; pfam02272 360105003430 Maf-like protein; Reviewed; Region: PRK04056 360105003431 Maf-like protein; Region: Maf; pfam02545 360105003432 putative active site [active] 360105003433 Transglycosylase; Region: Transgly; pfam00912 360105003434 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 360105003435 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 360105003436 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 360105003437 Domain of unknown function (DUF3173); Region: DUF3173; pfam11372 360105003438 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 360105003439 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 360105003440 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 360105003441 RimM N-terminal domain; Region: RimM; pfam01782 360105003442 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK14593 360105003443 PRC-barrel domain; Region: PRC; pfam05239 360105003444 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 360105003445 signal recognition particle protein; Provisional; Region: PRK10867 360105003446 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 360105003447 P loop; other site 360105003448 GTP binding site [chemical binding]; other site 360105003449 Signal peptide binding domain; Region: SRP_SPB; pfam02978 360105003450 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 360105003451 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 360105003452 RNA binding surface [nucleotide binding]; other site 360105003453 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 360105003454 active site 360105003455 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 360105003456 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 360105003457 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 360105003458 Protein-interacting Bro1-like domain of mammalian Alix and related domains; Region: BRO1_Alix_like; cl14649 360105003459 Putative zinc ribbon domain; Region: DUF164; pfam02591 360105003460 Uncharacterized conserved protein [Function unknown]; Region: COG0327 360105003461 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 360105003462 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 360105003463 dimer interface [polypeptide binding]; other site 360105003464 motif 1; other site 360105003465 active site 360105003466 motif 2; other site 360105003467 motif 3; other site 360105003468 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 360105003469 Protein of unknown function (DUF3972); Region: DUF3972; pfam13118 360105003470 AIR carboxylase; Region: AIRC; smart01001 360105003471 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 360105003472 Peptidase family U32; Region: Peptidase_U32; pfam01136 360105003473 histidinol-phosphatase; Provisional; Region: PRK07328 360105003474 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 360105003475 active site 360105003476 dimer interface [polypeptide binding]; other site 360105003477 glutamine synthetase, type I; Region: GlnA; TIGR00653 360105003478 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 360105003479 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 360105003480 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08451 360105003481 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 360105003482 Walker A motif; other site 360105003483 ATP binding site [chemical binding]; other site 360105003484 Walker B motif; other site 360105003485 transcription termination factor Rho; Provisional; Region: rho; PRK09376 360105003486 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 360105003487 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 360105003488 RNA binding site [nucleotide binding]; other site 360105003489 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 360105003490 multimer interface [polypeptide binding]; other site 360105003491 Walker A motif; other site 360105003492 ATP binding site [chemical binding]; other site 360105003493 Walker B motif; other site 360105003494 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 360105003495 Cation efflux family; Region: Cation_efflux; pfam01545 360105003496 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 360105003497 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 360105003498 homodimer interface [polypeptide binding]; other site 360105003499 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360105003500 catalytic residue [active] 360105003501 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 360105003502 homotrimer interaction site [polypeptide binding]; other site 360105003503 putative active site [active] 360105003504 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 360105003505 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 360105003506 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 360105003507 metal-binding site [ion binding] 360105003508 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 360105003509 Soluble P-type ATPase [General function prediction only]; Region: COG4087 360105003510 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 360105003511 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 360105003512 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360105003513 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360105003514 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 360105003515 dimerization interface [polypeptide binding]; other site 360105003516 transcription elongation factor NusA; Provisional; Region: nusA; PRK12328 360105003517 NusA N-terminal domain; Region: NusA_N; pfam08529 360105003518 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 360105003519 RNA binding site [nucleotide binding]; other site 360105003520 homodimer interface [polypeptide binding]; other site 360105003521 NusA-like KH domain; Region: KH_5; pfam13184 360105003522 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 360105003523 G-X-X-G motif; other site 360105003524 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14339 360105003525 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 360105003526 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 360105003527 FeS/SAM binding site; other site 360105003528 TRAM domain; Region: TRAM; pfam01938 360105003529 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 360105003530 putative acyl-acceptor binding pocket; other site 360105003531 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 360105003532 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 360105003533 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 360105003534 Ligand Binding Site [chemical binding]; other site 360105003535 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 360105003536 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 360105003537 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 360105003538 FeS/SAM binding site; other site 360105003539 pantoate--beta-alanine ligase; Region: panC; TIGR00018 360105003540 Pantoate-beta-alanine ligase; Region: PanC; cd00560 360105003541 active site 360105003542 ATP-binding site [chemical binding]; other site 360105003543 pantoate-binding site; other site 360105003544 HXXH motif; other site 360105003545 peptide chain release factor 2; Validated; Region: prfB; PRK00578 360105003546 PCRF domain; Region: PCRF; pfam03462 360105003547 RF-1 domain; Region: RF-1; pfam00472 360105003548 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 360105003549 Sel1-like repeats; Region: SEL1; smart00671 360105003550 Sel1-like repeats; Region: SEL1; smart00671 360105003551 sulfation-dependent quorum factor, Ax21 family; Region: Y_sulf_Ax21; TIGR04273 360105003552 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 360105003553 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360105003554 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 360105003555 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 360105003556 Sel1-like repeats; Region: SEL1; smart00671 360105003557 Sel1-like repeats; Region: SEL1; smart00671 360105003558 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 360105003559 dimer interface [polypeptide binding]; other site 360105003560 active site 360105003561 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 360105003562 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 360105003563 putative ribose interaction site [chemical binding]; other site 360105003564 putative ADP binding site [chemical binding]; other site 360105003565 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 360105003566 active site 360105003567 nucleotide binding site [chemical binding]; other site 360105003568 HIGH motif; other site 360105003569 KMSKS motif; other site 360105003570 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360105003571 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 360105003572 NAD(P) binding site [chemical binding]; other site 360105003573 active site 360105003574 Cytochrome c; Region: Cytochrom_C; cl11414 360105003575 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 360105003576 Helix-hairpin-helix motif; Region: HHH; pfam00633 360105003577 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 360105003578 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 360105003579 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 360105003580 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360105003581 active site 360105003582 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 360105003583 hypothetical protein; Provisional; Region: PRK08444 360105003584 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 360105003585 FeS/SAM binding site; other site 360105003586 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 360105003587 metal binding triad [ion binding]; metal-binding site 360105003588 [Protein-PII] uridylyltransferase; Region: UTase_glnD; TIGR01693 360105003589 UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: GlnD; COG2844 360105003590 ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; Region: ACT_UUR-ACR-like; cd04873 360105003591 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 360105003592 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 360105003593 glutaminase active site [active] 360105003594 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 360105003595 dimer interface [polypeptide binding]; other site 360105003596 active site 360105003597 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 360105003598 dimer interface [polypeptide binding]; other site 360105003599 active site 360105003600 Domain of unknown function (DUF4272); Region: DUF4272; pfam14094 360105003601 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 360105003602 conserved cys residue [active] 360105003603 Tetrahydrodipicolinate N-succinyltransferase [Amino acid transport and metabolism]; Region: DapD; COG2171 360105003604 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 360105003605 putative trimer interface [polypeptide binding]; other site 360105003606 putative CoA binding site [chemical binding]; other site 360105003607 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 360105003608 putative active site [active] 360105003609 heme pocket [chemical binding]; other site 360105003610 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 360105003611 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 360105003612 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 360105003613 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 360105003614 tetramer interface [polypeptide binding]; other site 360105003615 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 360105003616 Domain of unknown function DUF59; Region: DUF59; cl00941 360105003617 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 360105003618 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 360105003619 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 360105003620 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 360105003621 substrate binding site; other site 360105003622 dimer interface; other site 360105003623 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 360105003624 homotrimer interaction site [polypeptide binding]; other site 360105003625 zinc binding site [ion binding]; other site 360105003626 CDP-binding sites; other site 360105003627 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 360105003628 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360105003629 active site 360105003630 phosphorylation site [posttranslational modification] 360105003631 intermolecular recognition site; other site 360105003632 dimerization interface [polypeptide binding]; other site 360105003633 ATP sulfurylase (sulfate adenylyltransferase) [Inorganic ion transport and metabolism]; Region: MET3; COG2046 360105003634 ATP-sulfurylase; Region: ATP-sulfurylase; pfam01747 360105003635 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 360105003636 tetramer interfaces [polypeptide binding]; other site 360105003637 binuclear metal-binding site [ion binding]; other site 360105003638 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 360105003639 Cytochrome c; Region: Cytochrom_C; pfam00034 360105003640 Campylobacter major outer membrane protein; Region: Campylo_MOMP; pfam05538 360105003641 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 360105003642 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 360105003643 dimerization interface [polypeptide binding]; other site 360105003644 DPS ferroxidase diiron center [ion binding]; other site 360105003645 ion pore; other site 360105003646 elongation factor G; Reviewed; Region: PRK00007 360105003647 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 360105003648 G1 box; other site 360105003649 putative GEF interaction site [polypeptide binding]; other site 360105003650 GTP/Mg2+ binding site [chemical binding]; other site 360105003651 Switch I region; other site 360105003652 G2 box; other site 360105003653 G3 box; other site 360105003654 Switch II region; other site 360105003655 G4 box; other site 360105003656 G5 box; other site 360105003657 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 360105003658 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 360105003659 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 360105003660 30S ribosomal protein S7; Validated; Region: PRK05302 360105003661 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 360105003662 S17 interaction site [polypeptide binding]; other site 360105003663 S8 interaction site; other site 360105003664 16S rRNA interaction site [nucleotide binding]; other site 360105003665 streptomycin interaction site [chemical binding]; other site 360105003666 23S rRNA interaction site [nucleotide binding]; other site 360105003667 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 360105003668 isoaspartyl dipeptidase; Provisional; Region: PRK10657 360105003669 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 360105003670 active site 360105003671 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 360105003672 Predicted membrane protein [Function unknown]; Region: COG2259 360105003673 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 360105003674 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 360105003675 RPB11 interaction site [polypeptide binding]; other site 360105003676 RPB12 interaction site [polypeptide binding]; other site 360105003677 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 360105003678 RPB3 interaction site [polypeptide binding]; other site 360105003679 RPB1 interaction site [polypeptide binding]; other site 360105003680 RPB11 interaction site [polypeptide binding]; other site 360105003681 RPB10 interaction site [polypeptide binding]; other site 360105003682 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 360105003683 L11 interface [polypeptide binding]; other site 360105003684 putative EF-Tu interaction site [polypeptide binding]; other site 360105003685 putative EF-G interaction site [polypeptide binding]; other site 360105003686 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 360105003687 23S rRNA interface [nucleotide binding]; other site 360105003688 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 360105003689 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 360105003690 mRNA/rRNA interface [nucleotide binding]; other site 360105003691 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 360105003692 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 360105003693 23S rRNA interface [nucleotide binding]; other site 360105003694 L7/L12 interface [polypeptide binding]; other site 360105003695 putative thiostrepton binding site; other site 360105003696 L25 interface [polypeptide binding]; other site 360105003697 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 360105003698 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 360105003699 putative homodimer interface [polypeptide binding]; other site 360105003700 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 360105003701 heterodimer interface [polypeptide binding]; other site 360105003702 homodimer interface [polypeptide binding]; other site 360105003703 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 360105003704 elongation factor Tu; Reviewed; Region: PRK00049 360105003705 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 360105003706 G1 box; other site 360105003707 GEF interaction site [polypeptide binding]; other site 360105003708 GTP/Mg2+ binding site [chemical binding]; other site 360105003709 Switch I region; other site 360105003710 G2 box; other site 360105003711 G3 box; other site 360105003712 Switch II region; other site 360105003713 G4 box; other site 360105003714 G5 box; other site 360105003715 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 360105003716 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 360105003717 Antibiotic Binding Site [chemical binding]; other site 360105003718 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 360105003719 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 360105003720 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 360105003721 DNA binding residues [nucleotide binding] 360105003722 dimerization interface [polypeptide binding]; other site 360105003723 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 360105003724 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 360105003725 HlyD family secretion protein; Region: HlyD_3; pfam13437 360105003726 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 360105003727 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 360105003728 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 360105003729 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 360105003730 Walker A/P-loop; other site 360105003731 ATP binding site [chemical binding]; other site 360105003732 Q-loop/lid; other site 360105003733 ABC transporter signature motif; other site 360105003734 Walker B; other site 360105003735 D-loop; other site 360105003736 H-loop/switch region; other site 360105003737 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 360105003738 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360105003739 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360105003740 metal binding site [ion binding]; metal-binding site 360105003741 active site 360105003742 I-site; other site 360105003743 EAL domain; Region: EAL; pfam00563 360105003744 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 360105003745 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 360105003746 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 360105003747 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 360105003748 FeS/SAM binding site; other site 360105003749 HemN C-terminal domain; Region: HemN_C; pfam06969 360105003750 Protein of unknown function (DUF2603); Region: DUF2603; pfam10788 360105003751 ornithine carbamoyltransferase; Provisional; Region: PRK00779 360105003752 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 360105003753 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 360105003754 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 360105003755 dimer interface [polypeptide binding]; other site 360105003756 active site 360105003757 Schiff base residues; other site 360105003758 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 360105003759 dimerization interface [polypeptide binding]; other site 360105003760 active site 360105003761 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 360105003762 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; cl17726 360105003763 M48 family peptidase; Provisional; Region: PRK03001 360105003764 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 360105003765 alanine racemase; Reviewed; Region: alr; PRK00053 360105003766 active site 360105003767 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360105003768 dimer interface [polypeptide binding]; other site 360105003769 substrate binding site [chemical binding]; other site 360105003770 catalytic residues [active] 360105003771 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 360105003772 Protein of unknown function (DUF461); Region: DUF461; pfam04314 360105003773 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 360105003774 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 360105003775 Cu(I) binding site [ion binding]; other site 360105003776 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 360105003777 active site residue [active] 360105003778 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 360105003779 dimer interface [polypeptide binding]; other site 360105003780 FMN binding site [chemical binding]; other site 360105003781 Pirin-related protein [General function prediction only]; Region: COG1741 360105003782 Pirin; Region: Pirin; pfam02678 360105003783 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 360105003784 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 360105003785 MarR family; Region: MarR_2; pfam12802 360105003786 NapD protein; Region: NapD; pfam03927 360105003787 FOG: WD40 repeat [General function prediction only]; Region: COG2319 360105003788 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 360105003789 structural tetrad; other site 360105003790 ferredoxin-type protein; Provisional; Region: PRK10194 360105003791 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 360105003792 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 360105003793 4Fe-4S binding domain; Region: Fer4_5; pfam12801 360105003794 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 360105003795 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 360105003796 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 360105003797 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 360105003798 molybdopterin cofactor binding site; other site 360105003799 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 360105003800 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 360105003801 molybdopterin cofactor binding site; other site 360105003802 Hpt domain; Region: Hpt; pfam01627 360105003803 putative binding surface; other site 360105003804 active site 360105003805 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 360105003806 oligomerization interface [polypeptide binding]; other site 360105003807 active site 360105003808 metal binding site [ion binding]; metal-binding site 360105003809 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 360105003810 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 360105003811 Walker A motif; other site 360105003812 ATP binding site [chemical binding]; other site 360105003813 Walker B motif; other site 360105003814 arginine finger; other site 360105003815 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 360105003816 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 360105003817 Domain of unknown function DUF20; Region: UPF0118; pfam01594 360105003818 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 360105003819 nucleotide binding site/active site [active] 360105003820 HIT family signature motif; other site 360105003821 catalytic residue [active] 360105003822 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360105003823 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 360105003824 dimer interface [polypeptide binding]; other site 360105003825 phosphorylation site [posttranslational modification] 360105003826 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 360105003827 ATP binding site [chemical binding]; other site 360105003828 Mg2+ binding site [ion binding]; other site 360105003829 G-X-G motif; other site 360105003830 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360105003831 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360105003832 active site 360105003833 phosphorylation site [posttranslational modification] 360105003834 intermolecular recognition site; other site 360105003835 dimerization interface [polypeptide binding]; other site 360105003836 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 360105003837 DNA binding site [nucleotide binding] 360105003838 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 360105003839 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 360105003840 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 360105003841 thiosulfate reductase PhsA; Provisional; Region: PRK15488 360105003842 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 360105003843 putative [Fe4-S4] binding site [ion binding]; other site 360105003844 putative molybdopterin cofactor binding site [chemical binding]; other site 360105003845 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 360105003846 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 360105003847 putative molybdopterin cofactor binding site; other site 360105003848 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 360105003849 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 360105003850 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 360105003851 Aspartase; Region: Aspartase; cd01357 360105003852 active sites [active] 360105003853 tetramer interface [polypeptide binding]; other site 360105003854 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 360105003855 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360105003856 Walker A/P-loop; other site 360105003857 ATP binding site [chemical binding]; other site 360105003858 Q-loop/lid; other site 360105003859 ABC transporter signature motif; other site 360105003860 Walker B; other site 360105003861 D-loop; other site 360105003862 H-loop/switch region; other site 360105003863 ABC transporter; Region: ABC_tran_2; pfam12848 360105003864 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 360105003865 Domain of unknown function (DUF1287); Region: DUF1287; pfam06940 360105003866 glucose-6-phosphate isomerase; Provisional; Region: PRK03868 360105003867 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 360105003868 dimer interface [polypeptide binding]; other site 360105003869 active site 360105003870 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 360105003871 dimer interface [polypeptide binding]; other site 360105003872 active site 360105003873 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 360105003874 active site 360105003875 tetramer interface; other site 360105003876 Uncharacterized conserved protein [Function unknown]; Region: COG1739 360105003877 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 360105003878 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 360105003879 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 360105003880 Iron-sulfur protein interface; other site 360105003881 proximal heme binding site [chemical binding]; other site 360105003882 distal heme binding site [chemical binding]; other site 360105003883 dimer interface [polypeptide binding]; other site 360105003884 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 360105003885 L-aspartate oxidase; Provisional; Region: PRK06175 360105003886 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 360105003887 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 360105003888 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 360105003889 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 360105003890 outer membrane porin, OprD family; Region: OprD; pfam03573 360105003891 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 360105003892 Dynamin family; Region: Dynamin_N; pfam00350 360105003893 G1 box; other site 360105003894 GTP/Mg2+ binding site [chemical binding]; other site 360105003895 G2 box; other site 360105003896 Switch I region; other site 360105003897 G3 box; other site 360105003898 Switch II region; other site 360105003899 G4 box; other site 360105003900 G5 box; other site 360105003901 Uncharacterized conserved protein [Function unknown]; Region: COG1359 360105003902 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 360105003903 dimer interface [polypeptide binding]; other site 360105003904 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 360105003905 metal binding site [ion binding]; metal-binding site 360105003906 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 360105003907 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 360105003908 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 360105003909 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 360105003910 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 360105003911 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 360105003912 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 360105003913 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 360105003914 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360105003915 Walker A/P-loop; other site 360105003916 ATP binding site [chemical binding]; other site 360105003917 Q-loop/lid; other site 360105003918 ABC transporter signature motif; other site 360105003919 Walker B; other site 360105003920 D-loop; other site 360105003921 H-loop/switch region; other site 360105003922 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 360105003923 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 360105003924 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 360105003925 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 360105003926 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 360105003927 putative transporter; Reviewed; Region: PRK12369 360105003928 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 360105003929 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 360105003930 active site 360105003931 catalytic residues [active] 360105003932 DNA binding site [nucleotide binding] 360105003933 Int/Topo IB signature motif; other site 360105003934 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 360105003935 non-specific DNA binding site [nucleotide binding]; other site 360105003936 salt bridge; other site 360105003937 sequence-specific DNA binding site [nucleotide binding]; other site 360105003938 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 360105003939 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 360105003940 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 360105003941 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 360105003942 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 360105003943 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 360105003944 active site 360105003945 DNA binding site [nucleotide binding] 360105003946 Int/Topo IB signature motif; other site 360105003947 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 360105003948 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 360105003949 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 360105003950 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 360105003951 HsdM N-terminal domain; Region: HsdM_N; pfam12161 360105003952 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 360105003953 S-adenosylmethionine binding site [chemical binding]; other site 360105003954 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 360105003955 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 360105003956 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 360105003957 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 360105003958 ATP binding site [chemical binding]; other site 360105003959 putative Mg++ binding site [ion binding]; other site 360105003960 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 360105003961 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 360105003962 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 360105003963 FeS/SAM binding site; other site 360105003964 Nitrate and nitrite sensing; Region: NIT; pfam08376 360105003965 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360105003966 dimer interface [polypeptide binding]; other site 360105003967 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 360105003968 putative CheW interface [polypeptide binding]; other site 360105003969 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 360105003970 substrate binding site [chemical binding]; other site 360105003971 active site 360105003972 Uncharacterized protein family, UPF0114; Region: UPF0114; pfam03350 360105003973 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 360105003974 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 360105003975 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 360105003976 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 360105003977 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360105003978 active site 360105003979 phosphorylation site [posttranslational modification] 360105003980 intermolecular recognition site; other site 360105003981 dimerization interface [polypeptide binding]; other site 360105003982 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 360105003983 Walker A motif; other site 360105003984 ATP binding site [chemical binding]; other site 360105003985 Walker B motif; other site 360105003986 arginine finger; other site 360105003987 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 360105003988 LPP20 lipoprotein; Region: LPP20; cl15824 360105003989 DNA gyrase subunit A; Validated; Region: PRK05560 360105003990 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 360105003991 CAP-like domain; other site 360105003992 active site 360105003993 primary dimer interface [polypeptide binding]; other site 360105003994 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360105003995 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360105003996 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360105003997 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360105003998 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360105003999 comF family protein; Region: comF; TIGR00201 360105004000 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360105004001 active site 360105004002 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 360105004003 active site 1 [active] 360105004004 dimer interface [polypeptide binding]; other site 360105004005 hexamer interface [polypeptide binding]; other site 360105004006 active site 2 [active] 360105004007 GTP-binding protein LepA; Provisional; Region: PRK05433 360105004008 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 360105004009 G1 box; other site 360105004010 putative GEF interaction site [polypeptide binding]; other site 360105004011 GTP/Mg2+ binding site [chemical binding]; other site 360105004012 Switch I region; other site 360105004013 G2 box; other site 360105004014 G3 box; other site 360105004015 Switch II region; other site 360105004016 G4 box; other site 360105004017 G5 box; other site 360105004018 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 360105004019 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 360105004020 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 360105004021 Uncharacterized conserved protein [Function unknown]; Region: COG2014 360105004022 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 360105004023 Domain of unknown function (DUF364); Region: DUF364; pfam04016 360105004024 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 360105004025 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 360105004026 Rrf2 family protein; Region: rrf2_super; TIGR00738 360105004027 Transcriptional regulator; Region: Rrf2; pfam02082 360105004028 Transcriptional regulator; Region: Rrf2; cl17282 360105004029 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 360105004030 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 360105004031 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360105004032 active site 360105004033 Protein of unknown function, DUF488; Region: DUF488; cl01246 360105004034 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 360105004035 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 360105004036 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 360105004037 Ligand Binding Site [chemical binding]; other site 360105004038 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 360105004039 flagellar motor switch protein FliY; Validated; Region: PRK08432 360105004040 flagellar motor switch protein FliN; Region: fliN; TIGR02480 360105004041 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 360105004042 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 360105004043 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 360105004044 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 360105004045 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 360105004046 DNA binding residues [nucleotide binding] 360105004047 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 360105004048 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 360105004049 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 360105004050 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 360105004051 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 360105004052 catalytic center binding site [active] 360105004053 ATP binding site [chemical binding]; other site 360105004054 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 360105004055 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 360105004056 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 360105004057 active site 360105004058 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 360105004059 Dehydroquinase class II; Region: DHquinase_II; pfam01220 360105004060 trimer interface [polypeptide binding]; other site 360105004061 active site 360105004062 dimer interface [polypeptide binding]; other site 360105004063 chlorohydrolase; Provisional; Region: PRK08418 360105004064 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 360105004065 active site 360105004066 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 360105004067 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 360105004068 tandem repeat interface [polypeptide binding]; other site 360105004069 oligomer interface [polypeptide binding]; other site 360105004070 active site residues [active] 360105004071 Uncharacterized protein conserved in bacteria (DUF2314); Region: DUF2314; pfam10077 360105004072 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 360105004073 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 360105004074 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 360105004075 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 360105004076 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 360105004077 catalytic motif [active] 360105004078 Zn binding site [ion binding]; other site 360105004079 RibD C-terminal domain; Region: RibD_C; cl17279 360105004080 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 360105004081 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 360105004082 Potassium binding sites [ion binding]; other site 360105004083 Cesium cation binding sites [ion binding]; other site 360105004084 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 360105004085 Sm and related proteins; Region: Sm_like; cl00259 360105004086 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 360105004087 putative oligomer interface [polypeptide binding]; other site 360105004088 putative RNA binding site [nucleotide binding]; other site 360105004089 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 360105004090 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 360105004091 translation initiation factor IF-2; Region: IF-2; TIGR00487 360105004092 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 360105004093 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 360105004094 G1 box; other site 360105004095 putative GEF interaction site [polypeptide binding]; other site 360105004096 GTP/Mg2+ binding site [chemical binding]; other site 360105004097 Switch I region; other site 360105004098 G2 box; other site 360105004099 G3 box; other site 360105004100 Switch II region; other site 360105004101 G4 box; other site 360105004102 G5 box; other site 360105004103 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 360105004104 Translation-initiation factor 2; Region: IF-2; pfam11987 360105004105 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 360105004106 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 360105004107 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 360105004108 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 360105004109 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 360105004110 Peptidase family M23; Region: Peptidase_M23; pfam01551 360105004111 prephenate dehydrogenase; Validated; Region: PRK08507 360105004112 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 360105004113 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 360105004114 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 360105004115 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 360105004116 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 360105004117 Surface antigen; Region: Bac_surface_Ag; pfam01103 360105004118 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 360105004119 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 360105004120 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 360105004121 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 360105004122 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 360105004123 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 360105004124 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 360105004125 FMN binding site [chemical binding]; other site 360105004126 active site 360105004127 catalytic residues [active] 360105004128 substrate binding site [chemical binding]; other site 360105004129 putative recombination protein RecO; Provisional; Region: PRK13908 360105004130 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 360105004131 metal ion-dependent adhesion site (MIDAS); other site 360105004132 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 360105004133 Ligand Binding Site [chemical binding]; other site 360105004134 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 360105004135 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 360105004136 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 360105004137 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 360105004138 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 360105004139 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 360105004140 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 360105004141 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 360105004142 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 360105004143 ligand binding site [chemical binding]; other site 360105004144 translocation protein TolB; Provisional; Region: tolB; PRK04043 360105004145 TolB amino-terminal domain; Region: TolB_N; pfam04052 360105004146 TonB C terminal; Region: TonB_2; pfam13103 360105004147 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 360105004148 TolR protein; Region: tolR; TIGR02801 360105004149 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 360105004150 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 360105004151 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 360105004152 gamma subunit interface [polypeptide binding]; other site 360105004153 epsilon subunit interface [polypeptide binding]; other site 360105004154 LBP interface [polypeptide binding]; other site 360105004155 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 360105004156 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 360105004157 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 360105004158 alpha subunit interaction interface [polypeptide binding]; other site 360105004159 Walker A motif; other site 360105004160 ATP binding site [chemical binding]; other site 360105004161 Walker B motif; other site 360105004162 inhibitor binding site; inhibition site 360105004163 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 360105004164 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 360105004165 core domain interface [polypeptide binding]; other site 360105004166 delta subunit interface [polypeptide binding]; other site 360105004167 epsilon subunit interface [polypeptide binding]; other site 360105004168 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 360105004169 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 360105004170 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 360105004171 beta subunit interaction interface [polypeptide binding]; other site 360105004172 Walker A motif; other site 360105004173 ATP binding site [chemical binding]; other site 360105004174 Walker B motif; other site 360105004175 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 360105004176 F0F1 ATP synthase subunit delta; Validated; Region: PRK08474 360105004177 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 360105004178 F0F1 ATP synthase subunit B; Validated; Region: PRK08475 360105004179 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 360105004180 F0F1 ATP synthase subunit B'; Validated; Region: PRK08476 360105004181 F0F1 ATP synthase subunit B'; Validated; Region: PRK07353 360105004182 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 360105004183 ParB-like nuclease domain; Region: ParB; smart00470 360105004184 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 360105004185 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 360105004186 P-loop; other site 360105004187 Magnesium ion binding site [ion binding]; other site 360105004188 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 360105004189 Magnesium ion binding site [ion binding]; other site 360105004190 biotin--protein ligase; Provisional; Region: PRK08477 360105004191 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 360105004192 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 360105004193 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 360105004194 putative active site [active] 360105004195 substrate binding site [chemical binding]; other site 360105004196 putative cosubstrate binding site; other site 360105004197 catalytic site [active] 360105004198 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 360105004199 substrate binding site [chemical binding]; other site 360105004200 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 360105004201 GTPase CgtA; Reviewed; Region: obgE; PRK12299 360105004202 GTP1/OBG; Region: GTP1_OBG; pfam01018 360105004203 Obg GTPase; Region: Obg; cd01898 360105004204 G1 box; other site 360105004205 GTP/Mg2+ binding site [chemical binding]; other site 360105004206 Switch I region; other site 360105004207 G2 box; other site 360105004208 G3 box; other site 360105004209 Switch II region; other site 360105004210 G4 box; other site 360105004211 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 360105004212 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 360105004213 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 360105004214 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 360105004215 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 360105004216 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 360105004217 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 360105004218 Protein of unknown function DUF111; Region: DUF111; pfam01969 360105004219 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 360105004220 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_I; cd01990 360105004221 Ligand Binding Site [chemical binding]; other site 360105004222 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 360105004223 AIR carboxylase; Region: AIRC; smart01001 360105004224 tartrate dehydratase subunit alpha; Validated; Region: PRK08230 360105004225 L(+)-tartrate dehydratase subunit beta; Validated; Region: PRK08228 360105004226 Transcriptional regulators [Transcription]; Region: GntR; COG1802 360105004227 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360105004228 DNA-binding site [nucleotide binding]; DNA binding site 360105004229 FCD domain; Region: FCD; pfam07729 360105004230 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 360105004231 active site 360105004232 homotetramer interface [polypeptide binding]; other site 360105004233 homodimer interface [polypeptide binding]; other site 360105004234 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 360105004235 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360105004236 NAD(P) binding site [chemical binding]; other site 360105004237 DNA polymerase I; Provisional; Region: PRK05755 360105004238 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 360105004239 active site 360105004240 metal binding site 1 [ion binding]; metal-binding site 360105004241 putative 5' ssDNA interaction site; other site 360105004242 metal binding site 3; metal-binding site 360105004243 metal binding site 2 [ion binding]; metal-binding site 360105004244 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 360105004245 putative DNA binding site [nucleotide binding]; other site 360105004246 putative metal binding site [ion binding]; other site 360105004247 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 360105004248 active site 360105004249 catalytic site [active] 360105004250 substrate binding site [chemical binding]; other site 360105004251 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 360105004252 active site 360105004253 DNA binding site [nucleotide binding] 360105004254 catalytic site [active] 360105004255 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 360105004256 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 360105004257 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 360105004258 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 360105004259 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 360105004260 active site 360105004261 multimer interface [polypeptide binding]; other site 360105004262 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 360105004263 putative phosphate acyltransferase; Provisional; Region: PRK05331 360105004264 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 360105004265 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 360105004266 dimer interface [polypeptide binding]; other site 360105004267 active site 360105004268 CoA binding pocket [chemical binding]; other site 360105004269 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 360105004270 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 360105004271 dimer interface [polypeptide binding]; other site 360105004272 decamer (pentamer of dimers) interface [polypeptide binding]; other site 360105004273 catalytic triad [active] 360105004274 peroxidatic and resolving cysteines [active] 360105004275 PilZ domain; Region: PilZ; pfam07238 360105004276 Domain of unknown function DUF87; Region: DUF87; pfam01935 360105004277 AAA-like domain; Region: AAA_10; pfam12846 360105004278 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 360105004279 Dihydroneopterin aldolase; Region: FolB; smart00905 360105004280 active site 360105004281 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360105004282 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360105004283 active site 360105004284 phosphorylation site [posttranslational modification] 360105004285 intermolecular recognition site; other site 360105004286 dimerization interface [polypeptide binding]; other site 360105004287 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 360105004288 DNA binding site [nucleotide binding] 360105004289 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360105004290 HAMP domain; Region: HAMP; pfam00672 360105004291 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 360105004292 dimer interface [polypeptide binding]; other site 360105004293 phosphorylation site [posttranslational modification] 360105004294 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 360105004295 exopolyphosphatase; Region: exo_poly_only; TIGR03706 360105004296 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 360105004297 flagellar motor switch protein; Validated; Region: PRK08433 360105004298 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 360105004299 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 360105004300 substrate binding site [chemical binding]; other site 360105004301 active site 360105004302 catalytic residues [active] 360105004303 heterodimer interface [polypeptide binding]; other site 360105004304 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 360105004305 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 360105004306 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360105004307 catalytic residue [active] 360105004308 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 360105004309 active site 360105004310 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional; Region: PRK14607 360105004311 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 360105004312 glutamine binding [chemical binding]; other site 360105004313 catalytic triad [active] 360105004314 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 360105004315 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 360105004316 anthranilate synthase component I, archaeal clade; Region: TrpE-arch; TIGR01820 360105004317 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 360105004318 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 360105004319 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 360105004320 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 360105004321 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 360105004322 Methyltransferase domain; Region: Methyltransf_31; pfam13847 360105004323 S-adenosylmethionine binding site [chemical binding]; other site 360105004324 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 360105004325 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 360105004326 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 360105004327 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 360105004328 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 360105004329 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360105004330 catalytic residue [active] 360105004331 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 360105004332 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 360105004333 generic binding surface II; other site 360105004334 generic binding surface I; other site 360105004335 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 360105004336 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 360105004337 S-adenosylmethionine binding site [chemical binding]; other site 360105004338 Clostridium thermocellum (Cth)TTM and similar proteins, a subgroup of the CYTH-like superfamily; Region: CYTH-like_CthTTM-like; cd07761 360105004339 putative active site [active] 360105004340 putative metal binding residues [ion binding]; other site 360105004341 signature motif; other site 360105004342 putative dimer interface [polypeptide binding]; other site 360105004343 putative phosphate binding site [ion binding]; other site 360105004344 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 360105004345 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 360105004346 metal binding site 2 [ion binding]; metal-binding site 360105004347 putative DNA binding helix; other site 360105004348 metal binding site 1 [ion binding]; metal-binding site 360105004349 dimer interface [polypeptide binding]; other site 360105004350 structural Zn2+ binding site [ion binding]; other site 360105004351 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 360105004352 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 360105004353 TPP-binding site; other site 360105004354 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 360105004355 PYR/PP interface [polypeptide binding]; other site 360105004356 dimer interface [polypeptide binding]; other site 360105004357 TPP binding site [chemical binding]; other site 360105004358 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 360105004359 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 360105004360 FliG C-terminal domain; Region: FliG_C; pfam01706 360105004361 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 360105004362 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 360105004363 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 360105004364 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 360105004365 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 360105004366 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360105004367 homodimer interface [polypeptide binding]; other site 360105004368 catalytic residue [active] 360105004369 Chorismate mutase type II; Region: CM_2; smart00830 360105004370 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 360105004371 Prephenate dehydratase; Region: PDT; pfam00800 360105004372 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 360105004373 putative L-Phe binding site [chemical binding]; other site 360105004374 diaminopimelate decarboxylase; Region: lysA; TIGR01048 360105004375 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 360105004376 active site 360105004377 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360105004378 substrate binding site [chemical binding]; other site 360105004379 catalytic residues [active] 360105004380 dimer interface [polypeptide binding]; other site 360105004381 Predicted permeases [General function prediction only]; Region: COG0795 360105004382 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 360105004383 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 360105004384 putative active site [active] 360105004385 catalytic residue [active] 360105004386 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 360105004387 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 360105004388 5S rRNA interface [nucleotide binding]; other site 360105004389 CTC domain interface [polypeptide binding]; other site 360105004390 L16 interface [polypeptide binding]; other site 360105004391 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 360105004392 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 360105004393 Walker A motif; other site 360105004394 ATP binding site [chemical binding]; other site 360105004395 Walker B motif; other site 360105004396 Class I aldolases; Region: Aldolase_Class_I; cl17187 360105004397 transaldolase; Provisional; Region: PRK03903 360105004398 catalytic residue [active] 360105004399 phosphoserine phosphatase SerB; Region: serB; TIGR00338 360105004400 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 360105004401 motif II; other site 360105004402 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 360105004403 putative CheA interaction surface; other site 360105004404 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 360105004405 putative binding surface; other site 360105004406 active site 360105004407 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 360105004408 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 360105004409 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 360105004410 ATP binding site [chemical binding]; other site 360105004411 Mg2+ binding site [ion binding]; other site 360105004412 G-X-G motif; other site 360105004413 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 360105004414 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 360105004415 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360105004416 active site 360105004417 phosphorylation site [posttranslational modification] 360105004418 intermolecular recognition site; other site 360105004419 dimerization interface [polypeptide binding]; other site 360105004420 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 360105004421 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 360105004422 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 360105004423 active site 360105004424 phosphorylation site [posttranslational modification] 360105004425 intermolecular recognition site; other site 360105004426 dimerization interface [polypeptide binding]; other site 360105004427 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 360105004428 putative active site [active] 360105004429 putative metal binding site [ion binding]; other site 360105004430 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 360105004431 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 360105004432 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 360105004433 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 360105004434 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 360105004435 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 360105004436 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 360105004437 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 360105004438 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 360105004439 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 360105004440 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 360105004441 ATP binding site [chemical binding]; other site 360105004442 substrate interface [chemical binding]; other site 360105004443 L-aspartate oxidase; Provisional; Region: PRK06175 360105004444 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 360105004445 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 360105004446 L-aspartate oxidase; Provisional; Region: PRK06175 360105004447 Transcriptional regulator [Transcription]; Region: LysR; COG0583 360105004448 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 360105004449 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 360105004450 dimerization interface [polypeptide binding]; other site 360105004451 Uncharacterized conserved protein [Function unknown]; Region: COG3334 360105004452 Flagellar FliJ protein; Region: FliJ; pfam02050 360105004453 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 360105004454 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 360105004455 GDP-binding site [chemical binding]; other site 360105004456 ACT binding site; other site 360105004457 IMP binding site; other site 360105004458 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12293 360105004459 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 360105004460 motif 1; other site 360105004461 dimer interface [polypeptide binding]; other site 360105004462 active site 360105004463 motif 2; other site 360105004464 PAS domain; Region: PAS_9; pfam13426 360105004465 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 360105004466 PAS domain; Region: PAS_9; pfam13426 360105004467 putative active site [active] 360105004468 heme pocket [chemical binding]; other site 360105004469 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360105004470 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360105004471 metal binding site [ion binding]; metal-binding site 360105004472 active site 360105004473 I-site; other site 360105004474 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 360105004475 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 360105004476 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 360105004477 CPxP motif; other site 360105004478 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 360105004479 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 360105004480 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 360105004481 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 360105004482 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 360105004483 dimer interface [polypeptide binding]; other site 360105004484 active site 360105004485 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360105004486 catalytic residues [active] 360105004487 substrate binding site [chemical binding]; other site 360105004488 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 360105004489 MoaE interaction surface [polypeptide binding]; other site 360105004490 thiocarboxylated glycine; other site 360105004491 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 360105004492 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 360105004493 N-terminal plug; other site 360105004494 ligand-binding site [chemical binding]; other site 360105004495 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 360105004496 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 360105004497 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 360105004498 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 360105004499 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 360105004500 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 360105004501 dimer interface [polypeptide binding]; other site 360105004502 putative functional site; other site 360105004503 putative MPT binding site; other site 360105004504 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 360105004505 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 360105004506 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360105004507 Coenzyme A binding pocket [chemical binding]; other site 360105004508 flavoprotein, HI0933 family; Region: TIGR00275 360105004509 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 360105004510 Major Facilitator Superfamily; Region: MFS_1; pfam07690 360105004511 putative substrate translocation pore; other site 360105004512 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 360105004513 active site 360105004514 dimerization interface [polypeptide binding]; other site 360105004515 Lysine efflux permease [General function prediction only]; Region: COG1279 360105004516 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 360105004517 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 360105004518 NAD(P) binding pocket [chemical binding]; other site 360105004519 NnrS protein; Region: NnrS; pfam05940 360105004520 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 360105004521 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360105004522 Walker A/P-loop; other site 360105004523 ATP binding site [chemical binding]; other site 360105004524 Q-loop/lid; other site 360105004525 ABC transporter signature motif; other site 360105004526 Walker B; other site 360105004527 D-loop; other site 360105004528 H-loop/switch region; other site 360105004529 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 360105004530 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 360105004531 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 360105004532 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 360105004533 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 360105004534 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 360105004535 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 360105004536 catalytic residues [active] 360105004537 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 360105004538 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 360105004539 Walker A/P-loop; other site 360105004540 ATP binding site [chemical binding]; other site 360105004541 Q-loop/lid; other site 360105004542 ABC transporter signature motif; other site 360105004543 Walker B; other site 360105004544 D-loop; other site 360105004545 H-loop/switch region; other site 360105004546 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 360105004547 FtsX-like permease family; Region: FtsX; pfam02687 360105004548 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 360105004549 FtsX-like permease family; Region: FtsX; pfam02687 360105004550 Predicted membrane protein [Function unknown]; Region: COG4393 360105004551 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 360105004552 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 360105004553 Fe2+ transport protein; Region: Iron_transport; pfam10634 360105004554 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 360105004555 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 360105004556 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 360105004557 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 360105004558 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 360105004559 molybdopterin cofactor binding site; other site 360105004560 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 360105004561 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 360105004562 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 360105004563 selenocysteine synthase; Provisional; Region: PRK04311 360105004564 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 360105004565 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 360105004566 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 360105004567 G1 box; other site 360105004568 putative GEF interaction site [polypeptide binding]; other site 360105004569 GTP/Mg2+ binding site [chemical binding]; other site 360105004570 Switch I region; other site 360105004571 G2 box; other site 360105004572 G3 box; other site 360105004573 Switch II region; other site 360105004574 G4 box; other site 360105004575 G5 box; other site 360105004576 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 360105004577 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 360105004578 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 360105004579 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 360105004580 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 360105004581 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 360105004582 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360105004583 active site 360105004584 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 360105004585 Malic enzyme, N-terminal domain; Region: malic; pfam00390 360105004586 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 360105004587 putative NAD(P) binding site [chemical binding]; other site 360105004588 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 360105004589 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 360105004590 active site 360105004591 HIGH motif; other site 360105004592 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 360105004593 active site 360105004594 KMSKS motif; other site 360105004595 SurA N-terminal domain; Region: SurA_N; pfam09312 360105004596 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 360105004597 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 360105004598 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 360105004599 dimer interface [polypeptide binding]; other site 360105004600 conserved gate region; other site 360105004601 putative PBP binding loops; other site 360105004602 ABC-ATPase subunit interface; other site 360105004603 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 360105004604 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 360105004605 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 360105004606 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 360105004607 Walker A/P-loop; other site 360105004608 ATP binding site [chemical binding]; other site 360105004609 Q-loop/lid; other site 360105004610 ABC transporter signature motif; other site 360105004611 Walker B; other site 360105004612 D-loop; other site 360105004613 H-loop/switch region; other site 360105004614 cobalt transport protein CbiM; Validated; Region: PRK06265 360105004615 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 360105004616 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 360105004617 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 360105004618 trimer interface [polypeptide binding]; other site 360105004619 active site 360105004620 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 360105004621 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 360105004622 NAD(P) binding site [chemical binding]; other site 360105004623 homodimer interface [polypeptide binding]; other site 360105004624 substrate binding site [chemical binding]; other site 360105004625 active site 360105004626 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 360105004627 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 360105004628 inhibitor-cofactor binding pocket; inhibition site 360105004629 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360105004630 catalytic residue [active] 360105004631 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 360105004632 ligand binding site; other site 360105004633 tetramer interface; other site 360105004634 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 360105004635 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 360105004636 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 360105004637 pseudaminic acid synthase; Region: PseI; TIGR03586 360105004638 NeuB family; Region: NeuB; pfam03102 360105004639 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 360105004640 NeuB binding interface [polypeptide binding]; other site 360105004641 putative substrate binding site [chemical binding]; other site 360105004642 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 360105004643 flagellin B; Provisional; Region: PRK13588 360105004644 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 360105004645 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 360105004646 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 360105004647 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 360105004648 DNA topoisomerase I; Validated; Region: PRK05582 360105004649 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 360105004650 active site 360105004651 interdomain interaction site; other site 360105004652 putative metal-binding site [ion binding]; other site 360105004653 nucleotide binding site [chemical binding]; other site 360105004654 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 360105004655 domain I; other site 360105004656 DNA binding groove [nucleotide binding] 360105004657 phosphate binding site [ion binding]; other site 360105004658 domain II; other site 360105004659 domain III; other site 360105004660 nucleotide binding site [chemical binding]; other site 360105004661 catalytic site [active] 360105004662 domain IV; other site 360105004663 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 360105004664 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 360105004665 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 360105004666 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 360105004667 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 360105004668 active site 360105004669 metal binding site [ion binding]; metal-binding site 360105004670 homotetramer interface [polypeptide binding]; other site 360105004671 biotin synthase; Provisional; Region: PRK08508 360105004672 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 360105004673 FeS/SAM binding site; other site 360105004674 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 360105004675 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 360105004676 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 360105004677 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 360105004678 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 360105004679 dimer interface [polypeptide binding]; other site 360105004680 active site 360105004681 citrylCoA binding site [chemical binding]; other site 360105004682 NADH binding [chemical binding]; other site 360105004683 cationic pore residues; other site 360105004684 oxalacetate/citrate binding site [chemical binding]; other site 360105004685 coenzyme A binding site [chemical binding]; other site 360105004686 catalytic triad [active] 360105004687 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 360105004688 active site 360105004689 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 360105004690 Methyltransferase domain; Region: Methyltransf_31; pfam13847 360105004691 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 360105004692 S-adenosylmethionine binding site [chemical binding]; other site 360105004693 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 360105004694 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 360105004695 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 360105004696 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 360105004697 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 360105004698 dimer interface [polypeptide binding]; other site 360105004699 conserved gate region; other site 360105004700 putative PBP binding loops; other site 360105004701 ABC-ATPase subunit interface; other site 360105004702 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 360105004703 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360105004704 Walker A/P-loop; other site 360105004705 ATP binding site [chemical binding]; other site 360105004706 Q-loop/lid; other site 360105004707 ABC transporter signature motif; other site 360105004708 Walker B; other site 360105004709 D-loop; other site 360105004710 H-loop/switch region; other site 360105004711 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 360105004712 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 360105004713 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 360105004714 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 360105004715 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 360105004716 TOBE domain; Region: TOBE; cl01440 360105004717 molybdenum-pterin binding domain; Region: Mop; TIGR00638 360105004718 VacJ like lipoprotein; Region: VacJ; cl01073 360105004719 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 360105004720 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 360105004721 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 360105004722 BON domain; Region: BON; pfam04972 360105004723 BON domain; Region: BON; cl02771 360105004724 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 360105004725 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 360105004726 UGMP family protein; Validated; Region: PRK09604 360105004727 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 360105004728 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 360105004729 active site 360105004730 Zn binding site [ion binding]; other site 360105004731 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 360105004732 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 360105004733 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 360105004734 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 360105004735 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 360105004736 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 360105004737 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 360105004738 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 360105004739 Domain of unknown function (DUF814); Region: DUF814; pfam05670 360105004740 Methyltransferase domain; Region: Methyltransf_31; pfam13847 360105004741 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 360105004742 S-adenosylmethionine binding site [chemical binding]; other site 360105004743 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 360105004744 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 360105004745 Walker A/P-loop; other site 360105004746 ATP binding site [chemical binding]; other site 360105004747 Q-loop/lid; other site 360105004748 ABC transporter signature motif; other site 360105004749 Walker B; other site 360105004750 D-loop; other site 360105004751 H-loop/switch region; other site 360105004752 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 360105004753 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 360105004754 ABC-ATPase subunit interface; other site 360105004755 dimer interface [polypeptide binding]; other site 360105004756 putative PBP binding regions; other site 360105004757 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 360105004758 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 360105004759 intersubunit interface [polypeptide binding]; other site 360105004760 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 360105004761 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 360105004762 N-terminal plug; other site 360105004763 ligand-binding site [chemical binding]; other site 360105004764 methanogenesis imperfect marker protein 11; Region: methan_mark_11; TIGR03280 360105004765 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 360105004766 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 360105004767 N-terminal plug; other site 360105004768 ligand-binding site [chemical binding]; other site 360105004769 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 360105004770 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 360105004771 substrate binding site [chemical binding]; other site 360105004772 ligand binding site [chemical binding]; other site 360105004773 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 360105004774 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 360105004775 GTP binding site; other site 360105004776 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 360105004777 dimerization interface [polypeptide binding]; other site 360105004778 substrate binding site [chemical binding]; other site 360105004779 active site 360105004780 calcium binding site [ion binding]; other site 360105004781 fructuronate transporter; Provisional; Region: PRK10034; cl15264 360105004782 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 360105004783 glycerate kinase; Region: TIGR00045 360105004784 AMIN domain; Region: AMIN; pfam11741 360105004785 enolase; Provisional; Region: eno; PRK00077 360105004786 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 360105004787 dimer interface [polypeptide binding]; other site 360105004788 metal binding site [ion binding]; metal-binding site 360105004789 substrate binding pocket [chemical binding]; other site 360105004790 recombinase A; Provisional; Region: recA; PRK09354 360105004791 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 360105004792 hexamer interface [polypeptide binding]; other site 360105004793 Walker A motif; other site 360105004794 ATP binding site [chemical binding]; other site 360105004795 Walker B motif; other site 360105004796 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13904 360105004797 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 360105004798 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 360105004799 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 360105004800 nicotinate phosphoribosyltransferase; Provisional; Region: PRK07188 360105004801 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 360105004802 active site 360105004803 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 360105004804 Helix-hairpin-helix motif; Region: HHH; pfam00633 360105004805 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 360105004806 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 360105004807 active site 360105004808 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 360105004809 homotrimer interaction site [polypeptide binding]; other site 360105004810 putative active site [active] 360105004811 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 360105004812 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 360105004813 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 360105004814 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 360105004815 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 360105004816 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 360105004817 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 360105004818 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 360105004819 Cache domain; Region: Cache_2; cl07034 360105004820 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 360105004821 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 360105004822 NnrS protein; Region: NnrS; pfam05940 360105004823 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 360105004824 dimer interface [polypeptide binding]; other site 360105004825 catalytic triad [active] 360105004826 peroxidatic and resolving cysteines [active] 360105004827 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 360105004828 Domain of unknown function DUF21; Region: DUF21; pfam01595 360105004829 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 360105004830 Transporter associated domain; Region: CorC_HlyC; smart01091 360105004831 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 360105004832 Na2 binding site [ion binding]; other site 360105004833 putative substrate binding site 1 [chemical binding]; other site 360105004834 Na binding site 1 [ion binding]; other site 360105004835 putative substrate binding site 2 [chemical binding]; other site 360105004836 Flavodoxin domain; Region: Flavodoxin_3; pfam12641 360105004837 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 360105004838 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 360105004839 FeS/SAM binding site; other site 360105004840 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 360105004841 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 360105004842 intersubunit interface [polypeptide binding]; other site 360105004843 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 360105004844 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 360105004845 ABC-ATPase subunit interface; other site 360105004846 dimer interface [polypeptide binding]; other site 360105004847 putative PBP binding regions; other site 360105004848 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 360105004849 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 360105004850 N-terminal plug; other site 360105004851 ligand-binding site [chemical binding]; other site 360105004852 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 360105004853 heme oxygenase, HugZ family; Region: heme_ox_HugZ; TIGR04109 360105004854 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 360105004855 Predicted metal-binding protein [General function prediction only]; Region: COG3019 360105004856 putative transporter; Reviewed; Region: PRK12369 360105004857 Peptidase family M48; Region: Peptidase_M48; pfam01435 360105004858 Intra-flagellar transport protein 57; Region: IFT57; pfam10498 360105004859 Protein of unknown function (DUF493); Region: DUF493; pfam04359 360105004860 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 360105004861 trimer interface [polypeptide binding]; other site 360105004862 dimer interface [polypeptide binding]; other site 360105004863 putative active site [active] 360105004864 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 360105004865 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 360105004866 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 360105004867 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 360105004868 Walker A/P-loop; other site 360105004869 ATP binding site [chemical binding]; other site 360105004870 Q-loop/lid; other site 360105004871 ABC transporter signature motif; other site 360105004872 Walker B; other site 360105004873 D-loop; other site 360105004874 H-loop/switch region; other site 360105004875 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 360105004876 4Fe-4S binding domain; Region: Fer4_5; pfam12801 360105004877 Cytochrome c; Region: Cytochrom_C; cl11414 360105004878 Cytochrome c; Region: Cytochrom_C; cl11414 360105004879 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 360105004880 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 360105004881 Pectate lyase; Region: Pec_lyase_C; cl01593 360105004882 nitrous-oxide reductase, Sec-dependent; Region: nitrous_NosZ_Gp; TIGR04246 360105004883 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 360105004884 Cytochrome c; Region: Cytochrom_C; pfam00034 360105004885 PQQ-like domain; Region: PQQ_2; pfam13360 360105004886 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 360105004887 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 360105004888 heme-binding residues [chemical binding]; other site 360105004889 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 360105004890 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 360105004891 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 360105004892 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 360105004893 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 360105004894 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 360105004895 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 360105004896 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 360105004897 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 360105004898 Bacteriophage head to tail connecting protein; Region: Head-tail_con; pfam12236 360105004899 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 360105004900 Terminase-like family; Region: Terminase_6; pfam03237 360105004901 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 360105004902 DnaB-like helicase C terminal domain; Region: DnaB_C; pfam03796 360105004903 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 360105004904 Walker A motif; other site 360105004905 ATP binding site [chemical binding]; other site 360105004906 Walker B motif; other site 360105004907 Helix-turn-helix domain; Region: HTH_36; pfam13730 360105004908 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 360105004909 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 360105004910 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 360105004911 cofactor binding site; other site 360105004912 DNA binding site [nucleotide binding] 360105004913 substrate interaction site [chemical binding]; other site 360105004914 Regulator of G protein signaling (RGS) domain superfamily; Region: RGS; cl02565 360105004915 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 360105004916 non-specific DNA binding site [nucleotide binding]; other site 360105004917 salt bridge; other site 360105004918 sequence-specific DNA binding site [nucleotide binding]; other site 360105004919 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 360105004920 Catalytic site [active] 360105004921 AAA domain; Region: AAA_23; pfam13476 360105004922 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360105004923 AAA domain; Region: AAA_21; pfam13304 360105004924 Walker A/P-loop; other site 360105004925 ATP binding site [chemical binding]; other site 360105004926 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360105004927 Walker B; other site 360105004928 D-loop; other site 360105004929 H-loop/switch region; other site 360105004930 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 360105004931 Staphylococcal nuclease homologues; Region: SNc; smart00318 360105004932 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 360105004933 Catalytic site; other site 360105004934 Protein of unknown function (DUF1351); Region: DUF1351; pfam07083 360105004935 RecT family; Region: RecT; pfam03837 360105004936 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 360105004937 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 360105004938 dimer interface [polypeptide binding]; other site 360105004939 ssDNA binding site [nucleotide binding]; other site 360105004940 tetramer (dimer of dimers) interface [polypeptide binding]; other site 360105004941 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 360105004942 YopX protein; Region: YopX; pfam09643 360105004943 integrase; Provisional; Region: PRK09692 360105004944 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 360105004945 active site 360105004946 Int/Topo IB signature motif; other site 360105004947 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 360105004948 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 360105004949 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 360105004950 TPP-binding site [chemical binding]; other site 360105004951 dimer interface [polypeptide binding]; other site 360105004952 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 360105004953 PYR/PP interface [polypeptide binding]; other site 360105004954 dimer interface [polypeptide binding]; other site 360105004955 TPP binding site [chemical binding]; other site 360105004956 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 360105004957 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 360105004958 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 360105004959 substrate binding pocket [chemical binding]; other site 360105004960 chain length determination region; other site 360105004961 substrate-Mg2+ binding site; other site 360105004962 catalytic residues [active] 360105004963 aspartate-rich region 1; other site 360105004964 active site lid residues [active] 360105004965 aspartate-rich region 2; other site 360105004966 PDZ domain; Region: PDZ_2; pfam13180 360105004967 protein binding site [polypeptide binding]; other site 360105004968 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 360105004969 hypothetical protein; Provisional; Region: PRK03762 360105004970 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 360105004971 tetramerization interface [polypeptide binding]; other site 360105004972 active site 360105004973 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 360105004974 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360105004975 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 360105004976 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 360105004977 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 360105004978 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 360105004979 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 360105004980 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 360105004981 alphaNTD homodimer interface [polypeptide binding]; other site 360105004982 alphaNTD - beta interaction site [polypeptide binding]; other site 360105004983 alphaNTD - beta' interaction site [polypeptide binding]; other site 360105004984 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 360105004985 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 360105004986 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 360105004987 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 360105004988 RNA binding surface [nucleotide binding]; other site 360105004989 30S ribosomal protein S11; Validated; Region: PRK05309 360105004990 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 360105004991 30S ribosomal protein S13; Region: bact_S13; TIGR03631 360105004992 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 360105004993 rRNA binding site [nucleotide binding]; other site 360105004994 predicted 30S ribosome binding site; other site 360105004995 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 360105004996 SecY translocase; Region: SecY; pfam00344 360105004997 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 360105004998 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 360105004999 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 360105005000 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 360105005001 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 360105005002 5S rRNA interface [nucleotide binding]; other site 360105005003 23S rRNA interface [nucleotide binding]; other site 360105005004 L5 interface [polypeptide binding]; other site 360105005005 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 360105005006 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 360105005007 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 360105005008 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 360105005009 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 360105005010 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 360105005011 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 360105005012 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 360105005013 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 360105005014 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 360105005015 RNA binding site [nucleotide binding]; other site 360105005016 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 360105005017 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 360105005018 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 360105005019 putative translocon interaction site; other site 360105005020 23S rRNA interface [nucleotide binding]; other site 360105005021 signal recognition particle (SRP54) interaction site; other site 360105005022 L23 interface [polypeptide binding]; other site 360105005023 trigger factor interaction site; other site 360105005024 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 360105005025 23S rRNA interface [nucleotide binding]; other site 360105005026 5S rRNA interface [nucleotide binding]; other site 360105005027 putative antibiotic binding site [chemical binding]; other site 360105005028 L25 interface [polypeptide binding]; other site 360105005029 L27 interface [polypeptide binding]; other site 360105005030 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 360105005031 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 360105005032 G-X-X-G motif; other site 360105005033 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 360105005034 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 360105005035 putative translocon binding site; other site 360105005036 protein-rRNA interface [nucleotide binding]; other site 360105005037 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 360105005038 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 360105005039 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 360105005040 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 360105005041 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 360105005042 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 360105005043 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 360105005044 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 360105005045 AAA domain; Region: AAA_14; pfam13173 360105005046 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 360105005047 Predicted transcriptional regulators [Transcription]; Region: COG1733 360105005048 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 360105005049 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 360105005050 aspartate racemase; Region: asp_race; TIGR00035 360105005051 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 360105005052 RNA/DNA hybrid binding site [nucleotide binding]; other site 360105005053 active site 360105005054 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 360105005055 PAS domain; Region: PAS_9; pfam13426 360105005056 putative active site [active] 360105005057 heme pocket [chemical binding]; other site 360105005058 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360105005059 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360105005060 metal binding site [ion binding]; metal-binding site 360105005061 active site 360105005062 I-site; other site 360105005063 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 360105005064 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 360105005065 Sodium Bile acid symporter family; Region: SBF; cl17470 360105005066 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 360105005067 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 360105005068 homodimer interface [polypeptide binding]; other site 360105005069 substrate-cofactor binding pocket; other site 360105005070 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360105005071 catalytic residue [active] 360105005072 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 360105005073 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 360105005074 dimer interface [polypeptide binding]; other site 360105005075 conserved gate region; other site 360105005076 putative PBP binding loops; other site 360105005077 ABC-ATPase subunit interface; other site 360105005078 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 360105005079 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 360105005080 substrate binding pocket [chemical binding]; other site 360105005081 membrane-bound complex binding site; other site 360105005082 hinge residues; other site 360105005083 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 360105005084 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 360105005085 substrate binding pocket [chemical binding]; other site 360105005086 membrane-bound complex binding site; other site 360105005087 hinge residues; other site 360105005088 Protein of unknown function (DUF3737); Region: DUF3737; pfam12541 360105005089 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 360105005090 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 360105005091 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360105005092 homodimer interface [polypeptide binding]; other site 360105005093 catalytic residue [active] 360105005094 hypothetical protein; Provisional; Region: PRK07101 360105005095 substrate-cofactor binding pocket; other site 360105005096 para-aminobenzoate synthase component I; Validated; Region: PRK07093 360105005097 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 360105005098 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 360105005099 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 360105005100 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 360105005101 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 360105005102 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 360105005103 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 360105005104 DctM-like transporters; Region: DctM; pfam06808 360105005105 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360105005106 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360105005107 metal binding site [ion binding]; metal-binding site 360105005108 active site 360105005109 I-site; other site 360105005110 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360105005111 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360105005112 metal binding site [ion binding]; metal-binding site 360105005113 active site 360105005114 I-site; other site 360105005115 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 360105005116 Mechanosensitive ion channel; Region: MS_channel; pfam00924 360105005117 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 360105005118 active site clefts [active] 360105005119 zinc binding site [ion binding]; other site 360105005120 dimer interface [polypeptide binding]; other site 360105005121 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 360105005122 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 360105005123 thiamine-phosphate pyrophosphorylase; Provisional; Region: PRK02615 360105005124 Preprotein translocase SecG subunit; Region: SecG; pfam03840 360105005125 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 360105005126 putative active site [active] 360105005127 putative metal binding site [ion binding]; other site 360105005128 ribosome recycling factor; Reviewed; Region: frr; PRK00083 360105005129 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 360105005130 hinge region; other site 360105005131 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 360105005132 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360105005133 active site 360105005134 RDD family; Region: RDD; pfam06271 360105005135 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 360105005136 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 360105005137 molybdopterin cofactor binding site; other site 360105005138 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 360105005139 molybdopterin cofactor binding site; other site 360105005140 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 360105005141 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 360105005142 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 360105005143 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 360105005144 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 360105005145 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 360105005146 Radical SAM superfamily; Region: Radical_SAM; pfam04055 360105005147 FeS/SAM binding site; other site 360105005148 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 360105005149 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 360105005150 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 360105005151 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 360105005152 dimer interface [polypeptide binding]; other site 360105005153 putative radical transfer pathway; other site 360105005154 diiron center [ion binding]; other site 360105005155 tyrosyl radical; other site 360105005156 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 360105005157 Predicted amidohydrolase [General function prediction only]; Region: COG0388 360105005158 active site 360105005159 catalytic triad [active] 360105005160 dimer interface [polypeptide binding]; other site 360105005161 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 360105005162 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 360105005163 S-adenosylmethionine binding site [chemical binding]; other site 360105005164 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 360105005165 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 360105005166 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 360105005167 DHH family; Region: DHH; pfam01368 360105005168 DHHA1 domain; Region: DHHA1; pfam02272 360105005169 CTP synthetase; Validated; Region: pyrG; PRK05380 360105005170 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 360105005171 Catalytic site [active] 360105005172 active site 360105005173 UTP binding site [chemical binding]; other site 360105005174 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 360105005175 active site 360105005176 putative oxyanion hole; other site 360105005177 catalytic triad [active] 360105005178 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 360105005179 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 360105005180 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 360105005181 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 360105005182 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 360105005183 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 360105005184 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 360105005185 Ligand Binding Site [chemical binding]; other site 360105005186 peptidase T; Region: peptidase-T; TIGR01882 360105005187 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 360105005188 metal binding site [ion binding]; metal-binding site 360105005189 dimer interface [polypeptide binding]; other site 360105005190 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 360105005191 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 360105005192 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 360105005193 active site pocket [active] 360105005194 oxyanion hole [active] 360105005195 catalytic triad [active] 360105005196 active site nucleophile [active] 360105005197 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 360105005198 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 360105005199 putative metal binding site [ion binding]; other site 360105005200 dimer interface [polypeptide binding]; other site 360105005201 allantoate amidohydrolase; Reviewed; Region: PRK09290 360105005202 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 360105005203 active site 360105005204 metal binding site [ion binding]; metal-binding site 360105005205 dimer interface [polypeptide binding]; other site 360105005206 DNA primase, catalytic core; Region: dnaG; TIGR01391 360105005207 CHC2 zinc finger; Region: zf-CHC2; pfam01807 360105005208 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 360105005209 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 360105005210 active site 360105005211 metal binding site [ion binding]; metal-binding site 360105005212 interdomain interaction site; other site 360105005213 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 360105005214 TPR motif; other site 360105005215 binding surface 360105005216 TPR repeat; Region: TPR_11; pfam13414 360105005217 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 360105005218 RNA/DNA hybrid binding site [nucleotide binding]; other site 360105005219 active site 360105005220 ribonuclease III; Reviewed; Region: rnc; PRK00102 360105005221 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 360105005222 dimerization interface [polypeptide binding]; other site 360105005223 active site 360105005224 metal binding site [ion binding]; metal-binding site 360105005225 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 360105005226 dsRNA binding site [nucleotide binding]; other site 360105005227 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 360105005228 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 360105005229 Tetramer interface [polypeptide binding]; other site 360105005230 active site 360105005231 FMN-binding site [chemical binding]; other site 360105005232 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 360105005233 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 360105005234 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 360105005235 FeS/SAM binding site; other site 360105005236 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 360105005237 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 360105005238 active site 360105005239 FMN binding site [chemical binding]; other site 360105005240 substrate binding site [chemical binding]; other site 360105005241 putative catalytic residue [active] 360105005242 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 360105005243 dimerization interface [polypeptide binding]; other site 360105005244 putative DNA binding site [nucleotide binding]; other site 360105005245 putative Zn2+ binding site [ion binding]; other site 360105005246 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 360105005247 active site 360105005248 putative DNA-binding cleft [nucleotide binding]; other site 360105005249 dimer interface [polypeptide binding]; other site