-- dump date 20120504_141919 -- class Genbank::misc_feature -- table misc_feature_note -- id note 272562000001 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 272562000002 classical (c) SDRs; Region: SDR_c; cd05233 272562000003 NAD(P) binding site [chemical binding]; other site 272562000004 active site 272562000005 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 272562000006 Clostridial hydrophobic W; Region: ChW; cl02763 272562000007 Clostridial hydrophobic W; Region: ChW; cl02763 272562000008 Clostridial hydrophobic W; Region: ChW; cl02763 272562000009 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 272562000010 Clostridial hydrophobic W; Region: ChW; cl02763 272562000011 Clostridial hydrophobic W; Region: ChW; cl02763 272562000012 Clostridial hydrophobic W; Region: ChW; cl02763 272562000013 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 272562000014 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 272562000015 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 272562000016 Clostridial hydrophobic W; Region: ChW; cl02763 272562000017 Clostridial hydrophobic W; Region: ChW; cl02763 272562000018 Clostridial hydrophobic W; Region: ChW; cl02763 272562000019 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 272562000020 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 272562000021 Clostridial hydrophobic W; Region: ChW; cl02763 272562000022 Clostridial hydrophobic W; Region: ChW; cl02763 272562000023 Clostridial hydrophobic W; Region: ChW; cl02763 272562000024 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 272562000025 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 272562000026 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 272562000027 active site 272562000028 Enterocin A Immunity; Region: EntA_Immun; pfam08951 272562000029 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 272562000030 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272562000031 DNA-binding site [nucleotide binding]; DNA binding site 272562000032 UTRA domain; Region: UTRA; cl01230 272562000033 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]; Region: COG3947 272562000034 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; cl09944 272562000035 active site 272562000036 phosphorylation site [posttranslational modification] 272562000037 dimerization interface [polypeptide binding]; other site 272562000038 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 272562000039 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 272562000040 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562000041 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 272562000042 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 272562000043 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 272562000044 putative active site [active] 272562000045 catalytic site [active] 272562000046 putative metal binding site [ion binding]; other site 272562000047 Predicted membrane protein (DUF2127); Region: DUF2127; cl01785 272562000048 Spore germination protein; Region: Spore_permease; cl15802 272562000049 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 272562000050 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 272562000051 Amino acid permease; Region: AA_permease; cl00524 272562000052 Helix-turn-helix domains; Region: HTH; cl00088 272562000053 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 272562000054 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 272562000055 dimer interface [polypeptide binding]; other site 272562000056 PYR/PP interface [polypeptide binding]; other site 272562000057 TPP binding site [chemical binding]; other site 272562000058 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 272562000059 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 272562000060 TPP-binding site [chemical binding]; other site 272562000061 dimer interface [polypeptide binding]; other site 272562000062 Amino acid permease; Region: AA_permease_2; pfam13520 272562000063 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272562000064 Helix-turn-helix domains; Region: HTH; cl00088 272562000065 drug efflux system protein MdtG; Provisional; Region: PRK09874 272562000066 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 272562000067 putative substrate translocation pore; other site 272562000068 Isochorismatase family; Region: Isochorismatase; pfam00857 272562000069 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 272562000070 catalytic triad [active] 272562000071 conserved cis-peptide bond; other site 272562000072 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 272562000073 dimerization interface [polypeptide binding]; other site 272562000074 putative DNA binding site [nucleotide binding]; other site 272562000075 putative Zn2+ binding site [ion binding]; other site 272562000076 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 272562000077 active site residue [active] 272562000078 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 272562000079 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 272562000080 active site residue [active] 272562000081 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 272562000082 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 272562000083 putative catalytic cysteine [active] 272562000084 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 272562000085 putative active site [active] 272562000086 metal binding site [ion binding]; metal-binding site 272562000087 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 272562000088 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 272562000089 Protein of unknown function (DUF4004); Region: DUF4004; pfam13171 272562000090 YCII-related domain; Region: YCII; cl00999 272562000091 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272562000092 Tetratricopeptide repeat; Region: TPR_12; pfam13424 272562000093 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 272562000094 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 272562000095 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 272562000096 FAD binding pocket [chemical binding]; other site 272562000097 FAD binding motif [chemical binding]; other site 272562000098 phosphate binding motif [ion binding]; other site 272562000099 beta-alpha-beta structure motif; other site 272562000100 NAD binding pocket [chemical binding]; other site 272562000101 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 272562000102 glycosyltransferase, MGT family; Region: MGT; TIGR01426 272562000103 active site 272562000104 TDP-binding site; other site 272562000105 acceptor substrate-binding pocket; other site 272562000106 homodimer interface [polypeptide binding]; other site 272562000107 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 272562000108 Helix-turn-helix domains; Region: HTH; cl00088 272562000109 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 272562000110 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272562000111 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272562000112 dimer interface [polypeptide binding]; other site 272562000113 putative CheW interface [polypeptide binding]; other site 272562000114 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 272562000115 H+ Antiporter protein; Region: 2A0121; TIGR00900 272562000116 putative substrate translocation pore; other site 272562000117 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 272562000118 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272562000119 substrate binding pocket [chemical binding]; other site 272562000120 catalytic triad [active] 272562000121 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 272562000122 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562000123 NAD(P) binding site [chemical binding]; other site 272562000124 active site 272562000125 Helix-turn-helix domains; Region: HTH; cl00088 272562000126 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 272562000127 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 272562000128 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 272562000129 putative active site [active] 272562000130 putative metal binding site [ion binding]; other site 272562000131 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 272562000132 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 272562000133 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 272562000134 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 272562000135 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 272562000136 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH5; cd08189 272562000137 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 272562000138 putative active site [active] 272562000139 metal binding site [ion binding]; metal-binding site 272562000140 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 272562000141 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 272562000142 Fructose-1.6-bisphosphate aldolase found in gram +/- bacteria; Region: FBP_aldolase_I_bact; cd00949 272562000143 putative active site [active] 272562000144 catalytic residue [active] 272562000145 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 272562000146 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 272562000147 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 272562000148 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 272562000149 active pocket/dimerization site; other site 272562000150 active site 272562000151 phosphorylation site [posttranslational modification] 272562000152 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 272562000153 active site 272562000154 phosphorylation site [posttranslational modification] 272562000155 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 272562000156 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 272562000157 Domain of unknown function (DUF956); Region: DUF956; cl01917 272562000158 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 272562000159 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 272562000160 motif II; other site 272562000161 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 272562000162 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272562000163 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 272562000164 putative sugar binding sites [chemical binding]; other site 272562000165 Q-X-W motif; other site 272562000166 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 272562000167 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 bacteriocins; Region: Peptidase_C39B; cd02418 272562000168 putative active site [active] 272562000169 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272562000170 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562000171 Walker A/P-loop; other site 272562000172 ATP binding site [chemical binding]; other site 272562000173 Q-loop/lid; other site 272562000174 ABC transporter signature motif; other site 272562000175 Walker B; other site 272562000176 D-loop; other site 272562000177 H-loop/switch region; other site 272562000178 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 272562000179 Protein of unknown function (DUF421); Region: DUF421; cl00990 272562000180 Transglycosylase; Region: Transgly; cl07896 272562000181 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 272562000182 putative acyltransferase; Provisional; Region: PRK05790 272562000183 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 272562000184 dimer interface [polypeptide binding]; other site 272562000185 active site 272562000186 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272562000187 Helix-turn-helix domains; Region: HTH; cl00088 272562000188 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 272562000189 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 272562000190 DNA binding site [nucleotide binding] 272562000191 Int/Topo IB signature motif; other site 272562000192 active site 272562000193 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 272562000194 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 272562000195 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 272562000196 ligand binding site [chemical binding]; other site 272562000197 flexible hinge region; other site 272562000198 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 272562000199 putative switch regulator; other site 272562000200 non-specific DNA interactions [nucleotide binding]; other site 272562000201 DNA binding site [nucleotide binding] 272562000202 sequence specific DNA binding site [nucleotide binding]; other site 272562000203 putative cAMP binding site [chemical binding]; other site 272562000204 Methyltransferase domain; Region: Methyltransf_31; pfam13847 272562000205 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 272562000206 S-adenosylmethionine binding site [chemical binding]; other site 272562000207 Protein of unknown function (DUF1648); Region: DUF1648; cl01712 272562000208 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272562000209 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272562000210 Helix-turn-helix domains; Region: HTH; cl00088 272562000211 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 272562000212 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 272562000213 dimer interface [polypeptide binding]; other site 272562000214 active site 272562000215 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 272562000216 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272562000217 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 272562000218 Walker A/P-loop; other site 272562000219 ATP binding site [chemical binding]; other site 272562000220 Q-loop/lid; other site 272562000221 ABC transporter signature motif; other site 272562000222 Walker B; other site 272562000223 D-loop; other site 272562000224 H-loop/switch region; other site 272562000225 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 272562000226 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 272562000227 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 272562000228 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; cl00217 272562000229 metal binding sites [ion binding]; metal-binding site 272562000230 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272562000231 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 272562000232 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272562000233 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac1_AmyA; cd11315 272562000234 active site 272562000235 Ca binding site [ion binding]; other site 272562000236 catalytic site [active] 272562000237 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 272562000238 Carbohydrate binding domain (family 25); Region: CBM_25; cl04060 272562000239 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: COG1193 272562000240 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562000241 Walker A/P-loop; other site 272562000242 ATP binding site [chemical binding]; other site 272562000243 Q-loop/lid; other site 272562000244 ABC transporter signature motif; other site 272562000245 Walker B; other site 272562000246 D-loop; other site 272562000247 H-loop/switch region; other site 272562000248 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272562000249 Helix-turn-helix domains; Region: HTH; cl00088 272562000250 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 272562000251 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 272562000252 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 272562000253 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 272562000254 dimerization interface [polypeptide binding]; other site 272562000255 putative DNA binding site [nucleotide binding]; other site 272562000256 putative Zn2+ binding site [ion binding]; other site 272562000257 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 272562000258 Membrane transport protein; Region: Mem_trans; cl09117 272562000259 Low molecular weight phosphatase family; Region: LMWPc; cd00115 272562000260 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 272562000261 active site 272562000262 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12315 272562000263 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 272562000264 TPP-binding site; other site 272562000265 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 272562000266 PYR/PP interface [polypeptide binding]; other site 272562000267 dimer interface [polypeptide binding]; other site 272562000268 TPP binding site [chemical binding]; other site 272562000269 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272562000270 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 272562000271 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 272562000272 DNA binding residues [nucleotide binding] 272562000273 putative dimer interface [polypeptide binding]; other site 272562000274 Helix-turn-helix domains; Region: HTH; cl00088 272562000275 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 272562000276 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272562000277 putative substrate translocation pore; other site 272562000278 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 272562000279 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272562000280 Coenzyme A binding pocket [chemical binding]; other site 272562000281 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272562000282 Coenzyme A binding pocket [chemical binding]; other site 272562000283 B3/4 domain; Region: B3_4; cl11458 272562000284 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 272562000285 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 272562000286 active site 272562000287 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 272562000288 substrate binding site [chemical binding]; other site 272562000289 active site 272562000290 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 272562000291 metal binding site [ion binding]; metal-binding site 272562000292 ligand binding site [chemical binding]; other site 272562000293 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 272562000294 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 272562000295 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 272562000296 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 272562000297 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 272562000298 putative sugar binding sites [chemical binding]; other site 272562000299 Q-X-W motif; other site 272562000300 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 272562000301 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 272562000302 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 272562000303 putative sugar binding sites [chemical binding]; other site 272562000304 Q-X-W motif; other site 272562000305 Glycosyl hydrolases family 43; Region: Glyco_hydro_43; pfam04616 272562000306 Glycosyl hydrolase family 43; Region: GH43_AXH_1; cd09003 272562000307 substrate binding site [chemical binding]; other site 272562000308 active site 272562000309 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 272562000310 metal binding site [ion binding]; metal-binding site 272562000311 ligand binding site [chemical binding]; other site 272562000312 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 272562000313 putative sugar binding sites [chemical binding]; other site 272562000314 Q-X-W motif; other site 272562000315 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 272562000316 Helix-turn-helix domains; Region: HTH; cl00088 272562000317 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 272562000318 NADP binding site [chemical binding]; other site 272562000319 active site 272562000320 putative substrate binding site [chemical binding]; other site 272562000321 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 272562000322 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272562000323 putative substrate translocation pore; other site 272562000324 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272562000325 Helix-turn-helix domains; Region: HTH; cl00088 272562000326 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 272562000327 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 272562000328 putative substrate translocation pore; other site 272562000329 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 272562000330 Putative phosphatase regulatory subunit; Region: CBM_21; pfam03370 272562000331 Putative phosphatase regulatory subunit; Region: CBM_21; pfam03370 272562000332 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 272562000333 putative substrate translocation pore; other site 272562000334 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 272562000335 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 272562000336 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272562000337 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 272562000338 active site 272562000339 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 272562000340 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562000341 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 272562000342 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 272562000343 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 272562000344 FeS/SAM binding site; other site 272562000345 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; cl14869 272562000346 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 272562000347 acetyl-CoA carboxylase subunit A; Validated; Region: PRK08463 272562000348 ATP-grasp domain; Region: ATP-grasp_4; cl03087 272562000349 Phosphopantetheine attachment site; Region: PP-binding; cl09936 272562000350 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 272562000351 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 272562000352 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 272562000353 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 272562000354 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cd00518 272562000355 nickel binding site [ion binding]; other site 272562000356 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 272562000357 HypF finger; Region: zf-HYPF; pfam07503 272562000358 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 272562000359 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 272562000360 Protein of unknown function (DUF421); Region: DUF421; cl00990 272562000361 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; cl03005 272562000362 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272562000363 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 272562000364 binding surface 272562000365 TPR motif; other site 272562000366 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 272562000367 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 272562000368 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272562000369 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 272562000370 catalytic residues [active] 272562000371 Helix-turn-helix domains; Region: HTH; cl00088 272562000372 Protein of unknown function (DUF1048); Region: DUF1048; cl01986 272562000373 Domain of unknown function (DUF897); Region: DUF897; cl01312 272562000374 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 272562000375 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 272562000376 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 272562000377 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 272562000378 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 272562000379 binding surface 272562000380 TPR motif; other site 272562000381 TPR repeat; Region: TPR_11; pfam13414 272562000382 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 272562000383 binding surface 272562000384 TPR motif; other site 272562000385 Tetratricopeptide repeat; Region: TPR_12; pfam13424 272562000386 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 272562000387 binding surface 272562000388 TPR repeat; Region: TPR_11; pfam13414 272562000389 TPR motif; other site 272562000390 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 272562000391 Coenzyme A acylating aldehyde dehydrogenase (ACDH), Ethanolamine utilization protein EutE, and related proteins; Region: ALDH_F20_ACDH_EutE-like; cd07081 272562000392 putative catalytic cysteine [active] 272562000393 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 272562000394 putative active site [active] 272562000395 metal binding site [ion binding]; metal-binding site 272562000396 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 272562000397 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 272562000398 Acetoacetate decarboxylase (ADC); Region: ADC; cl01919 272562000399 YvrJ protein family; Region: YvrJ; pfam12841 272562000400 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 272562000401 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272562000402 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; cl15358 272562000403 DNA binding residues [nucleotide binding] 272562000404 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac1_AmyA; cd11315 272562000405 active site 272562000406 Ca binding site [ion binding]; other site 272562000407 catalytic site [active] 272562000408 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 272562000409 Carbohydrate binding domain (family 25); Region: CBM_25; cl04060 272562000410 Carbohydrate binding domain (family 25); Region: CBM_25; cl04060 272562000411 Carbohydrate binding domain (family 25); Region: CBM_25; cl04060 272562000412 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 272562000413 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 272562000414 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1244 272562000415 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 272562000416 FeS/SAM binding site; other site 272562000417 Protein involved in initiation of plasmid replication [DNA replication, recombination, and repair]; Region: COG5527 272562000418 Initiator Replication protein; Region: Rep_3; cl03080 272562000419 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15375 272562000420 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 272562000421 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 272562000422 P-loop; other site 272562000423 Magnesium ion binding site [ion binding]; other site 272562000424 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 272562000425 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 272562000426 DNA binding residues [nucleotide binding] 272562000427 putative dimer interface [polypeptide binding]; other site 272562000428 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 272562000429 DnaA N-terminal domain; Region: DnaA_N; pfam11638 272562000430 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 272562000431 Walker A motif; other site 272562000432 ATP binding site [chemical binding]; other site 272562000433 Walker B motif; other site 272562000434 arginine finger; other site 272562000435 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 272562000436 DnaA box-binding interface [nucleotide binding]; other site 272562000437 DNA polymerase III subunit beta; Validated; Region: PRK05643 272562000438 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 272562000439 putative DNA binding surface [nucleotide binding]; other site 272562000440 dimer interface [polypeptide binding]; other site 272562000441 beta-clamp/clamp loader binding surface; other site 272562000442 beta-clamp/translesion DNA polymerase binding surface; other site 272562000443 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 272562000444 recombination protein F; Reviewed; Region: recF; PRK00064 272562000445 RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication...; Region: ABC_RecF; cd03242 272562000446 Walker A/P-loop; other site 272562000447 ATP binding site [chemical binding]; other site 272562000448 Q-loop/lid; other site 272562000449 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562000450 ABC transporter signature motif; other site 272562000451 Walker B; other site 272562000452 D-loop; other site 272562000453 H-loop/switch region; other site 272562000454 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 272562000455 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 272562000456 ATP binding site [chemical binding]; other site 272562000457 Mg2+ binding site [ion binding]; other site 272562000458 G-X-G motif; other site 272562000459 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 272562000460 anchoring element; other site 272562000461 dimer interface [polypeptide binding]; other site 272562000462 ATP binding site [chemical binding]; other site 272562000463 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 272562000464 active site 272562000465 putative metal-binding site [ion binding]; other site 272562000466 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 272562000467 DNA gyrase subunit A; Validated; Region: PRK05560 272562000468 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 272562000469 CAP-like domain; other site 272562000470 active site 272562000471 primary dimer interface [polypeptide binding]; other site 272562000472 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272562000473 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272562000474 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272562000475 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272562000476 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272562000477 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272562000478 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272562000479 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 272562000480 Helix-turn-helix domains; Region: HTH; cl00088 272562000481 3H domain; Region: 3H; pfam02829 272562000482 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 272562000483 Uncharacterised protein family (UPF0182); Region: UPF0182; pfam03699 272562000484 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272562000485 Predicted dehydrogenase [General function prediction only]; Region: COG0579 272562000486 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 272562000487 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 272562000488 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 272562000489 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 272562000490 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272562000491 catalytic residue [active] 272562000492 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 272562000493 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562000494 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 272562000495 seryl-tRNA synthetase; Provisional; Region: PRK05431 272562000496 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 272562000497 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 bound...; Region: SerRS_core; cd00770 272562000498 dimer interface [polypeptide binding]; other site 272562000499 active site 272562000500 motif 1; other site 272562000501 motif 2; other site 272562000502 motif 3; other site 272562000503 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272562000504 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272562000505 Helix-turn-helix domains; Region: HTH; cl00088 272562000506 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 272562000507 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272562000508 putative substrate translocation pore; other site 272562000509 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 272562000510 Predicted membrane protein [Function unknown]; Region: COG1511 272562000511 seryl-tRNA synthetase; Provisional; Region: PRK05431 272562000512 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 272562000513 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 bound...; Region: SerRS_core; cd00770 272562000514 dimer interface [polypeptide binding]; other site 272562000515 active site 272562000516 motif 1; other site 272562000517 motif 2; other site 272562000518 motif 3; other site 272562000519 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 272562000520 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562000521 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 272562000522 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272562000523 Helix-turn-helix domains; Region: HTH; cl00088 272562000524 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 272562000525 dimerization interface [polypeptide binding]; other site 272562000526 Predicted membrane protein (DUF2142); Region: DUF2142; cl01937 272562000527 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 272562000528 trimer interface [polypeptide binding]; other site 272562000529 active site 272562000530 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 272562000531 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 272562000532 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272562000533 active site 272562000534 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 272562000535 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 272562000536 catalytic loop [active] 272562000537 iron binding site [ion binding]; other site 272562000538 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 272562000539 4Fe-4S binding domain; Region: Fer4; cl02805 272562000540 4Fe-4S binding domain; Region: Fer4; cl02805 272562000541 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 272562000542 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 272562000543 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 272562000544 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 272562000545 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272562000546 Helix-turn-helix domains; Region: HTH; cl00088 272562000547 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 272562000548 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cl15691 272562000549 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 272562000550 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 272562000551 active site 272562000552 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 272562000553 phosphopeptide binding site; other site 272562000554 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 272562000555 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 272562000556 P-loop; other site 272562000557 Magnesium ion binding site [ion binding]; other site 272562000558 Ubiquitin-like proteins; Region: UBQ; cl00155 272562000559 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 272562000560 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 272562000561 phosphopeptide binding site; other site 272562000562 type VII secretion protein EssC, C-terminal domain; Region: T7_EssCb_Firm; TIGR03928 272562000563 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562000564 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562000565 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562000566 Proteins of 100 residues with WXG; Region: WXG100; cl02005 272562000567 Proteins of 100 residues with WXG; Region: WXG100; cl02005 272562000568 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 272562000569 binding surface 272562000570 TPR motif; other site 272562000571 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 272562000572 binding surface 272562000573 TPR motif; other site 272562000574 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 272562000575 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 272562000576 binding surface 272562000577 TPR motif; other site 272562000578 Proteins of 100 residues with WXG; Region: WXG100; cl02005 272562000579 Protein of unknown function (DUF1062); Region: DUF1062; cl01786 272562000580 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 272562000581 Phage tail protein; Region: Sipho_tail; cl11462 272562000582 Phage-related protein [Function unknown]; Region: PblB; COG4926 272562000583 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 272562000584 Phage-related protein [Function unknown]; Region: PblB; COG4926 272562000585 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272562000586 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 272562000587 Walker A/P-loop; other site 272562000588 ATP binding site [chemical binding]; other site 272562000589 Q-loop/lid; other site 272562000590 ABC transporter signature motif; other site 272562000591 Walker B; other site 272562000592 D-loop; other site 272562000593 H-loop/switch region; other site 272562000594 FtsX-like permease family; Region: FtsX; pfam02687 272562000595 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 272562000596 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl11605 272562000597 hemerythrin-like metal-binding domain; Region: hemeryth_dom; TIGR02481 272562000598 octamerization interface [polypeptide binding]; other site 272562000599 diferric-oxygen binding site [ion binding]; other site 272562000600 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 272562000601 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 272562000602 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 272562000603 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 272562000604 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 272562000605 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 272562000606 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 272562000607 dimerization interface [polypeptide binding]; other site 272562000608 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 272562000609 EamA-like transporter family; Region: EamA; cl01037 272562000610 EamA-like transporter family; Region: EamA; cl01037 272562000611 CAAX protease self-immunity; Region: Abi; cl00558 272562000612 Accessory gene regulator B; Region: AgrB; cl01873 272562000613 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 272562000614 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 272562000615 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 272562000616 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 272562000617 active site 272562000618 phosphorylation site [posttranslational modification] 272562000619 intermolecular recognition site; other site 272562000620 dimerization interface [polypeptide binding]; other site 272562000621 LytTr DNA-binding domain; Region: LytTR; cl04498 272562000622 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 272562000623 active site 272562000624 zinc binding site [ion binding]; other site 272562000625 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; cl09943 272562000626 PemK-like protein; Region: PemK; cl00995 272562000627 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 272562000628 putative active site [active] 272562000629 nucleotide binding site [chemical binding]; other site 272562000630 nudix motif; other site 272562000631 putative metal binding site [ion binding]; other site 272562000632 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 272562000633 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 272562000634 Cation efflux family; Region: Cation_efflux; cl00316 272562000635 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 272562000636 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 272562000637 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562000638 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 272562000639 NodB motif; other site 272562000640 active site 272562000641 catalytic site [active] 272562000642 Zn binding site [ion binding]; other site 272562000643 ketol-acid reductoisomerase; Provisional; Region: PRK05479 272562000644 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562000645 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 272562000646 Protein of unknown function (DUF441); Region: DUF441; cl01041 272562000647 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272562000648 Helix-turn-helix domains; Region: HTH; cl00088 272562000649 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 272562000650 putative dimerization interface [polypeptide binding]; other site 272562000651 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 272562000652 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 272562000653 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 272562000654 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 272562000655 tRNA; other site 272562000656 putative tRNA binding site [nucleotide binding]; other site 272562000657 putative NADP binding site [chemical binding]; other site 272562000658 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 272562000659 precorrin-2 dehydrogenase; Provisional; Region: PRK05562 272562000660 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562000661 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 272562000662 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; cl03189 272562000663 domain interfaces; other site 272562000664 active site 272562000665 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 272562000666 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 272562000667 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 272562000668 active site 272562000669 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 272562000670 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 272562000671 inhibitor-cofactor binding pocket; inhibition site 272562000672 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562000673 catalytic residue [active] 272562000674 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 272562000675 dimer interface [polypeptide binding]; other site 272562000676 active site 272562000677 Schiff base residues; other site 272562000678 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 272562000679 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 272562000680 homodimer interface [polypeptide binding]; other site 272562000681 substrate-cofactor binding pocket; other site 272562000682 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562000683 catalytic residue [active] 272562000684 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 272562000685 AAA domain; Region: AAA_18; pfam13238 272562000686 ligand-binding site [chemical binding]; other site 272562000687 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 272562000688 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562000689 domain; Region: Succ_DH_flav_C; pfam02910 272562000690 Ferredoxin [Energy production and conversion]; Region: COG1146 272562000691 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 272562000692 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 272562000693 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 272562000694 substrate binding pocket [chemical binding]; other site 272562000695 membrane-bound complex binding site; other site 272562000696 hinge residues; other site 272562000697 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 272562000698 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 272562000699 Walker A/P-loop; other site 272562000700 ATP binding site [chemical binding]; other site 272562000701 Q-loop/lid; other site 272562000702 ABC transporter signature motif; other site 272562000703 Walker B; other site 272562000704 D-loop; other site 272562000705 H-loop/switch region; other site 272562000706 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 272562000707 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 272562000708 dimer interface [polypeptide binding]; other site 272562000709 conserved gate region; other site 272562000710 putative PBP binding loops; other site 272562000711 ABC-ATPase subunit interface; other site 272562000712 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 272562000713 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 272562000714 Active Sites [active] 272562000715 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 272562000716 CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which...; Region: CysN_ATPS; cd04166 272562000717 CysD dimerization site [polypeptide binding]; other site 272562000718 G1 box; other site 272562000719 putative GEF interaction site [polypeptide binding]; other site 272562000720 GTP/Mg2+ binding site [chemical binding]; other site 272562000721 Switch I region; other site 272562000722 G2 box; other site 272562000723 G3 box; other site 272562000724 Switch II region; other site 272562000725 G4 box; other site 272562000726 G5 box; other site 272562000727 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 272562000728 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 272562000729 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562000730 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 272562000731 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 272562000732 substrate binding pocket [chemical binding]; other site 272562000733 membrane-bound complex binding site; other site 272562000734 hinge residues; other site 272562000735 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 272562000736 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 272562000737 dimer interface [polypeptide binding]; other site 272562000738 conserved gate region; other site 272562000739 putative PBP binding loops; other site 272562000740 ABC-ATPase subunit interface; other site 272562000741 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 272562000742 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 272562000743 Walker A/P-loop; other site 272562000744 ATP binding site [chemical binding]; other site 272562000745 Q-loop/lid; other site 272562000746 ABC transporter signature motif; other site 272562000747 Walker B; other site 272562000748 D-loop; other site 272562000749 H-loop/switch region; other site 272562000750 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 272562000751 Helix-turn-helix domains; Region: HTH; cl00088 272562000752 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 272562000753 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 272562000754 Rrf2 family protein; Region: rrf2_super; TIGR00738 272562000755 Helix-turn-helix domains; Region: HTH; cl00088 272562000756 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 272562000757 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 272562000758 ACS interaction site; other site 272562000759 CODH interaction site; other site 272562000760 cubane metal cluster (B-cluster) [ion binding]; other site 272562000761 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 272562000762 Response regulator receiver domain; Region: Response_reg; pfam00072 272562000763 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 272562000764 active site 272562000765 phosphorylation site [posttranslational modification] 272562000766 intermolecular recognition site; other site 272562000767 dimerization interface [polypeptide binding]; other site 272562000768 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 272562000769 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 272562000770 putative binding surface; other site 272562000771 active site 272562000772 P2 response regulator binding domain; Region: P2; pfam07194 272562000773 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 272562000774 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 272562000775 ATP binding site [chemical binding]; other site 272562000776 Mg2+ binding site [ion binding]; other site 272562000777 G-X-G motif; other site 272562000778 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 272562000779 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 272562000780 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 272562000781 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 272562000782 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 272562000783 dimerization interface [polypeptide binding]; other site 272562000784 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272562000785 dimer interface [polypeptide binding]; other site 272562000786 putative CheW interface [polypeptide binding]; other site 272562000787 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 272562000788 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562000789 Response regulator receiver domain; Region: Response_reg; pfam00072 272562000790 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 272562000791 active site 272562000792 phosphorylation site [posttranslational modification] 272562000793 intermolecular recognition site; other site 272562000794 dimerization interface [polypeptide binding]; other site 272562000795 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 272562000796 nucleoside/Zn binding site; other site 272562000797 dimer interface [polypeptide binding]; other site 272562000798 catalytic motif [active] 272562000799 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 272562000800 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562000801 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 272562000802 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 272562000803 recombination protein RecR; Reviewed; Region: recR; PRK00076 272562000804 RecR protein; Region: RecR; pfam02132 272562000805 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 272562000806 putative active site [active] 272562000807 putative metal-binding site [ion binding]; other site 272562000808 tetramer interface [polypeptide binding]; other site 272562000809 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 272562000810 SigmaK-factor processing regulatory protein BofA; Region: BofA; cl06466 272562000811 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 272562000812 Domain of unknown function DUF; Region: DUF204; pfam02659 272562000813 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272562000814 The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme...; Region: ABC_BcrA_bacitracin_resist; cd03268 272562000815 Walker A/P-loop; other site 272562000816 ATP binding site [chemical binding]; other site 272562000817 Q-loop/lid; other site 272562000818 ABC transporter signature motif; other site 272562000819 Walker B; other site 272562000820 D-loop; other site 272562000821 H-loop/switch region; other site 272562000822 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272562000823 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272562000824 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 272562000825 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272562000826 Sugar fermentation stimulation protein; Region: SfsA; cl00647 272562000827 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 272562000828 putative NADH binding site [chemical binding]; other site 272562000829 putative active site [active] 272562000830 nudix motif; other site 272562000831 putative metal binding site [ion binding]; other site 272562000832 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272562000833 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 272562000834 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272562000835 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272562000836 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562000837 Walker A/P-loop; other site 272562000838 ATP binding site [chemical binding]; other site 272562000839 Q-loop/lid; other site 272562000840 ABC transporter signature motif; other site 272562000841 Walker B; other site 272562000842 D-loop; other site 272562000843 H-loop/switch region; other site 272562000844 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 272562000845 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 272562000846 active site 272562000847 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 272562000848 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 272562000849 S-adenosylmethionine binding site [chemical binding]; other site 272562000850 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 272562000851 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 272562000852 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272562000853 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 272562000854 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272562000855 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 272562000856 motif II; other site 272562000857 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 272562000858 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 272562000859 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 272562000860 active site 272562000861 P-loop; other site 272562000862 phosphorylation site [posttranslational modification] 272562000863 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 272562000864 PRD domain; Region: PRD; cl15445 272562000865 PRD domain; Region: PRD; cl15445 272562000866 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 272562000867 P-loop; other site 272562000868 active site 272562000869 phosphorylation site [posttranslational modification] 272562000870 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cl00163 272562000871 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 272562000872 active site 272562000873 phosphorylation site [posttranslational modification] 272562000874 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 272562000875 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 272562000876 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 272562000877 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 272562000878 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 272562000879 glutaminase active site [active] 272562000880 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 272562000881 dimer interface [polypeptide binding]; other site 272562000882 active site 272562000883 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 272562000884 dimer interface [polypeptide binding]; other site 272562000885 active site 272562000886 TIGR04076 family protein; Region: TIGR04076 272562000887 Predicted acetyltransferase [General function prediction only]; Region: COG3393 272562000888 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272562000889 Coenzyme A binding pocket [chemical binding]; other site 272562000890 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 272562000891 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 272562000892 Transcriptional regulators [Transcription]; Region: MarR; COG1846 272562000893 Helix-turn-helix domains; Region: HTH; cl00088 272562000894 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272562000895 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 272562000896 Walker A/P-loop; other site 272562000897 ATP binding site [chemical binding]; other site 272562000898 Q-loop/lid; other site 272562000899 ABC transporter signature motif; other site 272562000900 Walker B; other site 272562000901 D-loop; other site 272562000902 H-loop/switch region; other site 272562000903 Protein of unknown function (DUF458); Region: DUF458; cl00861 272562000904 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 272562000905 catalytic core [active] 272562000906 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 272562000907 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272562000908 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562000909 Walker A/P-loop; other site 272562000910 ATP binding site [chemical binding]; other site 272562000911 Q-loop/lid; other site 272562000912 ABC transporter signature motif; other site 272562000913 Walker B; other site 272562000914 D-loop; other site 272562000915 H-loop/switch region; other site 272562000916 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272562000917 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272562000918 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 272562000919 Response regulator receiver domain; Region: Response_reg; pfam00072 272562000920 active site 272562000921 phosphorylation site [posttranslational modification] 272562000922 intermolecular recognition site; other site 272562000923 dimerization interface [polypeptide binding]; other site 272562000924 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 272562000925 DNA binding residues [nucleotide binding] 272562000926 dimerization interface [polypeptide binding]; other site 272562000927 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 272562000928 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 272562000929 putative active site [active] 272562000930 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 272562000931 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 272562000932 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 272562000933 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 272562000934 dimer interface [polypeptide binding]; other site 272562000935 conserved gate region; other site 272562000936 putative PBP binding loops; other site 272562000937 ABC-ATPase subunit interface; other site 272562000938 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 272562000939 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 272562000940 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 272562000941 dimer interface [polypeptide binding]; other site 272562000942 conserved gate region; other site 272562000943 putative PBP binding loops; other site 272562000944 ABC-ATPase subunit interface; other site 272562000945 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 272562000946 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 272562000947 Walker A/P-loop; other site 272562000948 ATP binding site [chemical binding]; other site 272562000949 Q-loop/lid; other site 272562000950 ABC transporter signature motif; other site 272562000951 Walker B; other site 272562000952 D-loop; other site 272562000953 H-loop/switch region; other site 272562000954 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272562000955 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 272562000956 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 272562000957 Walker A/P-loop; other site 272562000958 ATP binding site [chemical binding]; other site 272562000959 Q-loop/lid; other site 272562000960 ABC transporter signature motif; other site 272562000961 Walker B; other site 272562000962 D-loop; other site 272562000963 H-loop/switch region; other site 272562000964 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272562000965 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 272562000966 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272562000967 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 272562000968 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 272562000969 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 272562000970 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 272562000971 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 272562000972 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272562000973 Coenzyme A binding pocket [chemical binding]; other site 272562000974 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 272562000975 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272562000976 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 272562000977 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272562000978 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 272562000979 binding surface 272562000980 TPR motif; other site 272562000981 Tetratricopeptide repeat; Region: TPR_12; pfam13424 272562000982 Tetratricopeptide repeat; Region: TPR_12; pfam13424 272562000983 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 272562000984 active site 272562000985 trimer interface [polypeptide binding]; other site 272562000986 allosteric site; other site 272562000987 active site lid [active] 272562000988 hexamer (dimer of trimers) interface [polypeptide binding]; other site 272562000989 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 272562000990 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 272562000991 active site 272562000992 dimer interface [polypeptide binding]; other site 272562000993 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 272562000994 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272562000995 DNA-binding site [nucleotide binding]; DNA binding site 272562000996 UTRA domain; Region: UTRA; cl01230 272562000997 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272562000998 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 272562000999 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 272562001000 putative active site [active] 272562001001 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 272562001002 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 272562001003 active site 272562001004 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 272562001005 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl15364 272562001006 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 272562001007 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 272562001008 Ligand binding site; other site 272562001009 Putative Catalytic site; other site 272562001010 DXD motif; other site 272562001011 Helix-turn-helix domains; Region: HTH; cl00088 272562001012 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 272562001013 active site 272562001014 FMN binding site [chemical binding]; other site 272562001015 substrate binding site [chemical binding]; other site 272562001016 putative catalytic residue [active] 272562001017 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 272562001018 Helix-turn-helix domains; Region: HTH; cl00088 272562001019 Predicted membrane protein [Function unknown]; Region: COG2364 272562001020 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272562001021 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 272562001022 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272562001023 Helix-turn-helix domains; Region: HTH; cl00088 272562001024 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 272562001025 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272562001026 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_5; cd06166 272562001027 active site 272562001028 catalytic site [active] 272562001029 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 272562001030 active site 272562001031 metal binding site [ion binding]; metal-binding site 272562001032 YibE/F-like protein; Region: YibE_F; cl02259 272562001033 biotin synthase; Region: bioB; TIGR00433 272562001034 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 272562001035 FeS/SAM binding site; other site 272562001036 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 272562001037 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 272562001038 Helix-turn-helix domains; Region: HTH; cl00088 272562001039 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 272562001040 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 272562001041 putative peptidoglycan binding site; other site 272562001042 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 272562001043 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 272562001044 oligomer interface [polypeptide binding]; other site 272562001045 active site 272562001046 metal binding site [ion binding]; metal-binding site 272562001047 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 272562001048 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 272562001049 oligomer interface [polypeptide binding]; other site 272562001050 active site 272562001051 metal binding site [ion binding]; metal-binding site 272562001052 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 272562001053 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 272562001054 metal binding site [ion binding]; metal-binding site 272562001055 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 272562001056 Prephenate dehydratase; Region: PDT; pfam00800 272562001057 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 272562001058 putative L-Phe binding site [chemical binding]; other site 272562001059 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 272562001060 active site 272562001061 Fe-S cluster binding site [ion binding]; other site 272562001062 Clostripain family; Region: Peptidase_C11; cl04055 272562001063 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 272562001064 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 272562001065 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272562001066 catalytic residue [active] 272562001067 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 272562001068 active site 272562001069 DNA binding site [nucleotide binding] 272562001070 putative phosphate binding site [ion binding]; other site 272562001071 putative catalytic site [active] 272562001072 metal binding site A [ion binding]; metal-binding site 272562001073 AP binding site [nucleotide binding]; other site 272562001074 metal binding site B [ion binding]; metal-binding site 272562001075 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 272562001076 THUMP domain; Region: THUMP; cl12076 272562001077 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562001078 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272562001079 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 272562001080 active site 272562001081 phosphorylation site [posttranslational modification] 272562001082 intermolecular recognition site; other site 272562001083 dimerization interface [polypeptide binding]; other site 272562001084 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 272562001085 DNA binding site [nucleotide binding] 272562001086 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 272562001087 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 272562001088 ATP binding site [chemical binding]; other site 272562001089 Mg2+ binding site [ion binding]; other site 272562001090 G-X-G motif; other site 272562001091 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272562001092 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 272562001093 Walker A/P-loop; other site 272562001094 ATP binding site [chemical binding]; other site 272562001095 Q-loop/lid; other site 272562001096 ABC transporter signature motif; other site 272562001097 Walker B; other site 272562001098 D-loop; other site 272562001099 H-loop/switch region; other site 272562001100 FtsX-like permease family; Region: FtsX; pfam02687 272562001101 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 272562001102 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 272562001103 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 272562001104 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 272562001105 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 272562001106 Helix-turn-helix domains; Region: HTH; cl00088 272562001107 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 272562001108 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 272562001109 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 272562001110 putative substrate binding site [chemical binding]; other site 272562001111 putative ATP binding site [chemical binding]; other site 272562001112 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 272562001113 active site 272562001114 phosphorylation site [posttranslational modification] 272562001115 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 272562001116 P-loop; other site 272562001117 active site 272562001118 phosphorylation site [posttranslational modification] 272562001119 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 272562001120 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 272562001121 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 272562001122 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272562001123 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562001124 Walker A/P-loop; other site 272562001125 ATP binding site [chemical binding]; other site 272562001126 Q-loop/lid; other site 272562001127 ABC transporter signature motif; other site 272562001128 Walker B; other site 272562001129 D-loop; other site 272562001130 H-loop/switch region; other site 272562001131 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272562001132 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 272562001133 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 272562001134 Histidine kinase; Region: HisKA_3; pfam07730 272562001135 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 272562001136 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272562001137 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 272562001138 active site 272562001139 phosphorylation site [posttranslational modification] 272562001140 intermolecular recognition site; other site 272562001141 dimerization interface [polypeptide binding]; other site 272562001142 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 272562001143 DNA binding residues [nucleotide binding] 272562001144 dimerization interface [polypeptide binding]; other site 272562001145 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272562001146 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562001147 Walker A/P-loop; other site 272562001148 ATP binding site [chemical binding]; other site 272562001149 Q-loop/lid; other site 272562001150 ABC transporter signature motif; other site 272562001151 Walker B; other site 272562001152 D-loop; other site 272562001153 H-loop/switch region; other site 272562001154 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 272562001155 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272562001156 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 272562001157 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272562001158 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 272562001159 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272562001160 FtsX-like permease family; Region: FtsX; cl15850 272562001161 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272562001162 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 272562001163 Walker A/P-loop; other site 272562001164 ATP binding site [chemical binding]; other site 272562001165 Q-loop/lid; other site 272562001166 ABC transporter signature motif; other site 272562001167 Walker B; other site 272562001168 D-loop; other site 272562001169 H-loop/switch region; other site 272562001170 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 272562001171 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 272562001172 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 272562001173 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272562001174 putative metal binding site [ion binding]; other site 272562001175 Cache domain; Region: Cache_1; pfam02743 272562001176 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272562001177 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272562001178 dimer interface [polypeptide binding]; other site 272562001179 putative CheW interface [polypeptide binding]; other site 272562001180 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 272562001181 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 272562001182 nitrogenase reductase; Reviewed; Region: nifH; PRK13235 272562001183 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 272562001184 Nucleotide-binding sites [chemical binding]; other site 272562001185 Walker A motif; other site 272562001186 Switch I region of nucleotide binding site; other site 272562001187 Fe4S4 binding sites [ion binding]; other site 272562001188 Switch II region of nucleotide binding site; other site 272562001189 Nitrogen regulatory protein P-II; Region: P-II; cl00412 272562001190 Nitrogen regulatory protein P-II; Region: P-II; cl00412 272562001191 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 272562001192 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 272562001193 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 272562001194 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 272562001195 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 272562001196 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 272562001197 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 272562001198 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 272562001199 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 272562001200 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 272562001201 FeS/SAM binding site; other site 272562001202 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 272562001203 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 272562001204 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 272562001205 metal binding site [ion binding]; metal-binding site 272562001206 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 272562001207 active site 272562001208 catalytic residues [active] 272562001209 metal binding site [ion binding]; metal-binding site 272562001210 TspO/MBR family; Region: TspO_MBR; cl01379 272562001211 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 272562001212 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272562001213 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 272562001214 motif II; other site 272562001215 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 272562001216 Predicted transcriptional regulators [Transcription]; Region: COG1725 272562001217 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272562001218 DNA-binding site [nucleotide binding]; DNA binding site 272562001219 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 272562001220 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 272562001221 Walker A/P-loop; other site 272562001222 ATP binding site [chemical binding]; other site 272562001223 Q-loop/lid; other site 272562001224 ABC transporter signature motif; other site 272562001225 Walker B; other site 272562001226 D-loop; other site 272562001227 H-loop/switch region; other site 272562001228 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 272562001229 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 272562001230 NAD binding site [chemical binding]; other site 272562001231 dimer interface [polypeptide binding]; other site 272562001232 substrate binding site [chemical binding]; other site 272562001233 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272562001234 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 272562001235 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 272562001236 Walker A/P-loop; other site 272562001237 ATP binding site [chemical binding]; other site 272562001238 Q-loop/lid; other site 272562001239 ABC transporter signature motif; other site 272562001240 Walker B; other site 272562001241 D-loop; other site 272562001242 H-loop/switch region; other site 272562001243 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 272562001244 active site 272562001245 Amino acid permease; Region: AA_permease_2; pfam13520 272562001246 2-isopropylmalate synthase; Validated; Region: PRK03739 272562001247 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 272562001248 active site 272562001249 catalytic residues [active] 272562001250 metal binding site [ion binding]; metal-binding site 272562001251 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 272562001252 aspartate ammonia-lyase; Provisional; Region: PRK13353 272562001253 Aspartase; Region: Aspartase; cd01357 272562001254 active sites [active] 272562001255 tetramer interface [polypeptide binding]; other site 272562001256 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 272562001257 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272562001258 Zn2+ binding site [ion binding]; other site 272562001259 Mg2+ binding site [ion binding]; other site 272562001260 aspartate kinase; Reviewed; Region: PRK09034 272562001261 AAK_AKiii-YclM-BS: Amino Acid Kinase Superfamily (AAK), AKiii-YclM-BS; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in...; Region: AAK_AKiii-YclM-BS; cd04245 272562001262 putative catalytic residues [active] 272562001263 putative nucleotide binding site [chemical binding]; other site 272562001264 putative aspartate binding site [chemical binding]; other site 272562001265 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 272562001266 allosteric regulatory residue; other site 272562001267 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 272562001268 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 272562001269 PPIC-type PPIASE domain; Region: Rotamase; cl08278 272562001270 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 272562001271 putative PBP binding loops; other site 272562001272 ABC-ATPase subunit interface; other site 272562001273 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 272562001274 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 272562001275 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 272562001276 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 272562001277 active site 272562001278 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 272562001279 MPT binding site; other site 272562001280 trimer interface [polypeptide binding]; other site 272562001281 NAD-dependent deacetylase; Provisional; Region: PRK00481 272562001282 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 272562001283 DNA polymerase IV; Reviewed; Region: PRK03103 272562001284 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 272562001285 active site 272562001286 DNA binding site [nucleotide binding] 272562001287 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 272562001288 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272562001289 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 272562001290 The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme...; Region: ABC_BcrA_bacitracin_resist; cd03268 272562001291 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 272562001292 Walker A/P-loop; other site 272562001293 ATP binding site [chemical binding]; other site 272562001294 Q-loop/lid; other site 272562001295 ABC transporter signature motif; other site 272562001296 Walker B; other site 272562001297 D-loop; other site 272562001298 H-loop/switch region; other site 272562001299 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272562001300 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 272562001301 active site 272562001302 phosphorylation site [posttranslational modification] 272562001303 intermolecular recognition site; other site 272562001304 dimerization interface [polypeptide binding]; other site 272562001305 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 272562001306 DNA binding site [nucleotide binding] 272562001307 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 272562001308 dimer interface [polypeptide binding]; other site 272562001309 phosphorylation site [posttranslational modification] 272562001310 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 272562001311 ATP binding site [chemical binding]; other site 272562001312 Mg2+ binding site [ion binding]; other site 272562001313 G-X-G motif; other site 272562001314 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 272562001315 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 272562001316 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 272562001317 FAD binding site [chemical binding]; other site 272562001318 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 272562001319 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 272562001320 dimer interface [polypeptide binding]; other site 272562001321 catalytic triad [active] 272562001322 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 272562001323 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 272562001324 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 272562001325 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 272562001326 metal binding site [ion binding]; metal-binding site 272562001327 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 272562001328 Inhibitor of sigma-G Gin; Region: Gin; pfam10764 272562001329 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 272562001330 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 272562001331 homodimer interface [polypeptide binding]; other site 272562001332 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562001333 catalytic residue [active] 272562001334 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 272562001335 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562001336 active site 272562001337 Nitrogen regulatory protein P-II; Region: P-II; cl00412 272562001338 DNA polymerase III subunit delta'; Validated; Region: PRK05564 272562001339 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562001340 PSP1 C-terminal conserved region; Region: PSP1; cl00770 272562001341 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 272562001342 metal-binding site [ion binding] 272562001343 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 272562001344 4Fe-4S binding domain; Region: Fer4; cl02805 272562001345 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 272562001346 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 272562001347 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 272562001348 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 272562001349 ligand binding site [chemical binding]; other site 272562001350 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 272562001351 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 272562001352 S-adenosylmethionine binding site [chemical binding]; other site 272562001353 Predicted methyltransferases [General function prediction only]; Region: COG0313 272562001354 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 272562001355 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 272562001356 NlpC/P60 family; Region: NLPC_P60; cl11438 272562001357 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 272562001358 NlpC/P60 family; Region: NLPC_P60; cl11438 272562001359 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 272562001360 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 272562001361 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 272562001362 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 272562001363 active site 272562001364 NTP binding site [chemical binding]; other site 272562001365 metal binding triad [ion binding]; metal-binding site 272562001366 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272562001367 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 272562001368 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 272562001369 Predicted acetyltransferase [General function prediction only]; Region: COG3981 272562001370 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272562001371 ornithine carbamoyltransferase; Validated; Region: PRK02102 272562001372 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 272562001373 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562001374 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 272562001375 dimerization interface [polypeptide binding]; other site 272562001376 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 272562001377 dimer interface [polypeptide binding]; other site 272562001378 phosphorylation site [posttranslational modification] 272562001379 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 272562001380 ATP binding site [chemical binding]; other site 272562001381 G-X-G motif; other site 272562001382 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272562001383 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 272562001384 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272562001385 Walker A/P-loop; other site 272562001386 ATP binding site [chemical binding]; other site 272562001387 Q-loop/lid; other site 272562001388 ABC transporter signature motif; other site 272562001389 Walker B; other site 272562001390 D-loop; other site 272562001391 H-loop/switch region; other site 272562001392 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 272562001393 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272562001394 FtsX-like permease family; Region: FtsX; pfam02687 272562001395 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272562001396 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 272562001397 active site 272562001398 phosphorylation site [posttranslational modification] 272562001399 intermolecular recognition site; other site 272562001400 dimerization interface [polypeptide binding]; other site 272562001401 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 272562001402 DNA binding site [nucleotide binding] 272562001403 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 272562001404 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 272562001405 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 272562001406 dimer interface [polypeptide binding]; other site 272562001407 phosphorylation site [posttranslational modification] 272562001408 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 272562001409 ATP binding site [chemical binding]; other site 272562001410 Mg2+ binding site [ion binding]; other site 272562001411 G-X-G motif; other site 272562001412 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 272562001413 non-specific DNA binding site [nucleotide binding]; other site 272562001414 salt bridge; other site 272562001415 sequence-specific DNA binding site [nucleotide binding]; other site 272562001416 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 272562001417 recombination factor protein RarA; Reviewed; Region: PRK13342 272562001418 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 272562001419 Walker A motif; other site 272562001420 ATP binding site [chemical binding]; other site 272562001421 Walker B motif; other site 272562001422 arginine finger; other site 272562001423 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 272562001424 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 272562001425 catalytic triad [active] 272562001426 Protein of unknown function DUF45; Region: DUF45; cl00636 272562001427 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 272562001428 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 272562001429 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272562001430 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 272562001431 Predicted membrane protein [Function unknown]; Region: COG4684 272562001432 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 272562001433 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; cl09200 272562001434 LXG domain of WXG superfamily; Region: LXG; pfam04740 272562001435 NAD+--asparagine ADP-ribosyltransferase [Signal transduction mechanisms]; Region: COG5585 272562001436 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 272562001437 NAD+--asparagine ADP-ribosyltransferase [Signal transduction mechanisms]; Region: COG5585 272562001438 Immunity protein Imm6; Region: Imm6; pfam14434 272562001439 Immunity protein Imm6; Region: Imm6; pfam14434 272562001440 NAD+--asparagine ADP-ribosyltransferase [Signal transduction mechanisms]; Region: COG5585 272562001441 VIP2; A family of actin-ADP-ribosylating toxin. A member of the Bacillus-prodiced vegetative insecticidal proteins (VIPs) possesses high specificity against the major insect pest, corn rootworms, and belongs to a classs of binary toxins and regulators of...; Region: VIP2; cd00233 272562001442 active site 272562001443 conformational flexibility of ligand binding pocket; other site 272562001444 ADP-ribosylating toxin turn-turn motif; other site 272562001445 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 272562001446 Uncharacterized protein conserved in bacteria (DUF2247); Region: DUF2247; cl01763 272562001447 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 272562001448 putative active site [active] 272562001449 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 272562001450 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 272562001451 active site 272562001452 metal binding site [ion binding]; metal-binding site 272562001453 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 272562001454 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 272562001455 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 272562001456 active site 272562001457 metal binding site [ion binding]; metal-binding site 272562001458 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 272562001459 Mannosyltransferase (PIG-V)); Region: Mannosyl_trans2; cl02342 272562001460 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 272562001461 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 272562001462 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 272562001463 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 272562001464 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 272562001465 Putative catalytic NodB homology domain of gellan lyase and similar proteins; Region: CE4_GLA_like_6s; cd10967 272562001466 putative active site [active] 272562001467 putative metal binding site [ion binding]; other site 272562001468 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 272562001469 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272562001470 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272562001471 DNA binding site [nucleotide binding] 272562001472 domain linker motif; other site 272562001473 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 272562001474 dimerization interface [polypeptide binding]; other site 272562001475 ligand binding site [chemical binding]; other site 272562001476 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 272562001477 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 272562001478 NADP binding site [chemical binding]; other site 272562001479 homodimer interface [polypeptide binding]; other site 272562001480 active site 272562001481 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 272562001482 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 272562001483 Active_site [active] 272562001484 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272562001485 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 272562001486 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562001487 Membrane transport protein; Region: Mem_trans; cl09117 272562001488 Arginine degradation protein (predicted deacylase) [Amino acid transport and metabolism]; Region: RocB; COG4187 272562001489 M20 Peptidase Arginine utilization protein, RocB; Region: M20_ArgE_RocB; cd05654 272562001490 putative metal binding site [ion binding]; other site 272562001491 putative dimer interface [polypeptide binding]; other site 272562001492 4-aminobutyrate aminotransferase; Provisional; Region: PRK08117 272562001493 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 272562001494 inhibitor-cofactor binding pocket; inhibition site 272562001495 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562001496 catalytic residue [active] 272562001497 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272562001498 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 272562001499 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 272562001500 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272562001501 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 272562001502 active site 272562001503 phosphorylation site [posttranslational modification] 272562001504 intermolecular recognition site; other site 272562001505 dimerization interface [polypeptide binding]; other site 272562001506 Helix-turn-helix domains; Region: HTH; cl00088 272562001507 DNA binding site [nucleotide binding] 272562001508 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272562001509 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 272562001510 ATP binding site [chemical binding]; other site 272562001511 Mg2+ binding site [ion binding]; other site 272562001512 G-X-G motif; other site 272562001513 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272562001514 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 272562001515 Walker A/P-loop; other site 272562001516 ATP binding site [chemical binding]; other site 272562001517 Q-loop/lid; other site 272562001518 ABC transporter signature motif; other site 272562001519 Walker B; other site 272562001520 D-loop; other site 272562001521 H-loop/switch region; other site 272562001522 aminotransferase A; Validated; Region: PRK07683 272562001523 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 272562001524 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562001525 homodimer interface [polypeptide binding]; other site 272562001526 catalytic residue [active] 272562001527 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 272562001528 Amidinotransferase; Region: Amidinotransf; cl12043 272562001529 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 272562001530 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 272562001531 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 272562001532 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 272562001533 Walker A/P-loop; other site 272562001534 ATP binding site [chemical binding]; other site 272562001535 Q-loop/lid; other site 272562001536 ABC transporter signature motif; other site 272562001537 Walker B; other site 272562001538 D-loop; other site 272562001539 H-loop/switch region; other site 272562001540 Transcriptional regulators [Transcription]; Region: GntR; COG1802 272562001541 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272562001542 DNA-binding site [nucleotide binding]; DNA binding site 272562001543 FCD domain; Region: FCD; cl11656 272562001544 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 272562001545 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 272562001546 substrate binding pocket [chemical binding]; other site 272562001547 membrane-bound complex binding site; other site 272562001548 hinge residues; other site 272562001549 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272562001550 dimer interface [polypeptide binding]; other site 272562001551 putative CheW interface [polypeptide binding]; other site 272562001552 Adenosine deaminase z-alpha domain; Region: z-alpha; cl02659 272562001553 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 272562001554 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 272562001555 Walker A motif; other site 272562001556 ATP binding site [chemical binding]; other site 272562001557 Walker B motif; other site 272562001558 arginine finger; other site 272562001559 Transcriptional antiterminator [Transcription]; Region: COG3933 272562001560 PRD domain; Region: PRD; cl15445 272562001561 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 272562001562 active pocket/dimerization site; other site 272562001563 active site 272562001564 phosphorylation site [posttranslational modification] 272562001565 PRD domain; Region: PRD; cl15445 272562001566 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 272562001567 active site 272562001568 methionine cluster; other site 272562001569 phosphorylation site [posttranslational modification] 272562001570 metal binding site [ion binding]; metal-binding site 272562001571 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 272562001572 active site 272562001573 P-loop; other site 272562001574 phosphorylation site [posttranslational modification] 272562001575 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 272562001576 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 272562001577 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 272562001578 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 272562001579 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 272562001580 homodimer interface [polypeptide binding]; other site 272562001581 substrate-cofactor binding pocket; other site 272562001582 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562001583 catalytic residue [active] 272562001584 cystathionine beta-lyase; Provisional; Region: PRK08064 272562001585 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 272562001586 homodimer interface [polypeptide binding]; other site 272562001587 substrate-cofactor binding pocket; other site 272562001588 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562001589 catalytic residue [active] 272562001590 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 272562001591 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272562001592 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272562001593 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272562001594 DNA binding site [nucleotide binding] 272562001595 domain linker motif; other site 272562001596 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 272562001597 putative dimerization interface [polypeptide binding]; other site 272562001598 putative ligand binding site [chemical binding]; other site 272562001599 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 272562001600 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 272562001601 active site 272562001602 intersubunit interface [polypeptide binding]; other site 272562001603 catalytic residue [active] 272562001604 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 272562001605 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 272562001606 substrate binding site [chemical binding]; other site 272562001607 ATP binding site [chemical binding]; other site 272562001608 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 272562001609 active site 272562001610 dimer interface [polypeptide binding]; other site 272562001611 magnesium binding site [ion binding]; other site 272562001612 Predicted sugar phosphate isomerase involved in capsule formation [Cell envelope biogenesis, outer membrane]; Region: GutQ; COG0794 272562001613 Hexulose-6-phosphate isomerase (PHI). PHI is a member of the SIS (Sugar ISomerase domain) superfamily. In the ribulose monophosphate pathway of formaldehyde fixation, hexulose-6-phosphate synthase catalyzes the condensation of ribulose-5-phosphate with...; Region: SIS_PHI; cd05005 272562001614 tetramer interface [polypeptide binding]; other site 272562001615 active site 272562001616 Proteins of 100 residues with WXG; Region: WXG100; cl02005 272562001617 Protein of unknown function (DUF3607); Region: DUF3607; pfam12245 272562001618 Protein of unknown function (DUF3607); Region: DUF3607; pfam12245 272562001619 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272562001620 Protein kinase domain; Region: Pkinase; pfam00069 272562001621 active site 272562001622 ATP binding site [chemical binding]; other site 272562001623 substrate binding site [chemical binding]; other site 272562001624 activation loop (A-loop); other site 272562001625 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 272562001626 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 272562001627 TPR motif; other site 272562001628 binding surface 272562001629 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 272562001630 TPR motif; other site 272562001631 binding surface 272562001632 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 272562001633 phosphopeptide binding site; other site 272562001634 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 272562001635 active site 272562001636 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 272562001637 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 272562001638 phosphopeptide binding site; other site 272562001639 type VII secretion protein EssC, C-terminal domain; Region: T7_EssCb_Firm; TIGR03928 272562001640 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562001641 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562001642 Ubiquitin-like proteins; Region: UBQ; cl00155 272562001643 Proteins of 100 residues with WXG; Region: WXG100; cl02005 272562001644 Proteins of 100 residues with WXG; Region: WXG100; cl02005 272562001645 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 272562001646 binding surface 272562001647 TPR motif; other site 272562001648 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 272562001649 binding surface 272562001650 TPR motif; other site 272562001651 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 272562001652 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 272562001653 binding surface 272562001654 TPR motif; other site 272562001655 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 272562001656 binding surface 272562001657 TPR motif; other site 272562001658 Proteins of 100 residues with WXG; Region: WXG100; cl02005 272562001659 TPR repeat; Region: TPR_11; pfam13414 272562001660 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 272562001661 binding surface 272562001662 TPR motif; other site 272562001663 TPR repeat; Region: TPR_11; pfam13414 272562001664 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 272562001665 binding surface 272562001666 TPR motif; other site 272562001667 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 272562001668 TPR motif; other site 272562001669 binding surface 272562001670 TPR repeat; Region: TPR_11; pfam13414 272562001671 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 272562001672 binding surface 272562001673 TPR motif; other site 272562001674 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 272562001675 binding surface 272562001676 TPR motif; other site 272562001677 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 272562001678 binding surface 272562001679 TPR motif; other site 272562001680 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 272562001681 binding surface 272562001682 TPR motif; other site 272562001683 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 272562001684 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 272562001685 binding surface 272562001686 TPR motif; other site 272562001687 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 272562001688 ArsC family; Region: ArsC; pfam03960 272562001689 catalytic residue [active] 272562001690 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 272562001691 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 272562001692 motif II; other site 272562001693 Transmembrane protein 55A; Region: Tmemb_55A; pfam09788 272562001694 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 272562001695 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 272562001696 transcriptional antiterminator BglG; Provisional; Region: PRK09772 272562001697 CAT RNA binding domain; Region: CAT_RBD; cl03904 272562001698 PRD domain; Region: PRD; cl15445 272562001699 PRD domain; Region: PRD; cl15445 272562001700 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 272562001701 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 272562001702 active site turn [active] 272562001703 phosphorylation site [posttranslational modification] 272562001704 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 272562001705 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 272562001706 HPr interaction site; other site 272562001707 glycerol kinase (GK) interaction site [polypeptide binding]; other site 272562001708 active site 272562001709 phosphorylation site [posttranslational modification] 272562001710 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 272562001711 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 272562001712 putative substrate binding site [chemical binding]; other site 272562001713 putative ATP binding site [chemical binding]; other site 272562001714 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 272562001715 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 272562001716 substrate binding [chemical binding]; other site 272562001717 active site 272562001718 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 272562001719 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 272562001720 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272562001721 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 272562001722 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 272562001723 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 272562001724 dimer interface [polypeptide binding]; other site 272562001725 conserved gate region; other site 272562001726 putative PBP binding loops; other site 272562001727 ABC-ATPase subunit interface; other site 272562001728 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 272562001729 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 272562001730 dimer interface [polypeptide binding]; other site 272562001731 conserved gate region; other site 272562001732 putative PBP binding loops; other site 272562001733 ABC-ATPase subunit interface; other site 272562001734 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272562001735 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 272562001736 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 272562001737 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 272562001738 active site 272562001739 catalytic site [active] 272562001740 metal binding site [ion binding]; metal-binding site 272562001741 dimer interface [polypeptide binding]; other site 272562001742 Uncharacterized conserved protein [Function unknown]; Region: COG1284 272562001743 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272562001744 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 272562001745 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 272562001746 Predicted histidine kinase sensor domain; Region: Hist_Kin_Sens; pfam10114 272562001747 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272562001748 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272562001749 dimer interface [polypeptide binding]; other site 272562001750 putative CheW interface [polypeptide binding]; other site 272562001751 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 272562001752 homotrimer interaction site [polypeptide binding]; other site 272562001753 zinc binding site [ion binding]; other site 272562001754 CDP-binding sites; other site 272562001755 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 272562001756 putative active site [active] 272562001757 putative metal binding site [ion binding]; other site 272562001758 PAS domain S-box; Region: sensory_box; TIGR00229 272562001759 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 272562001760 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 272562001761 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 272562001762 dimer interface [polypeptide binding]; other site 272562001763 phosphorylation site [posttranslational modification] 272562001764 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 272562001765 ATP binding site [chemical binding]; other site 272562001766 Mg2+ binding site [ion binding]; other site 272562001767 G-X-G motif; other site 272562001768 BON domain; Region: BON; cl02771 272562001769 BON domain; Region: BON; cl02771 272562001770 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 272562001771 putative active site [active] 272562001772 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 272562001773 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 272562001774 Cl- selectivity filter; other site 272562001775 Cl- binding residues [ion binding]; other site 272562001776 pore gating glutamate residue; other site 272562001777 dimer interface [polypeptide binding]; other site 272562001778 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 272562001779 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 272562001780 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272562001781 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 272562001782 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 272562001783 Helix-turn-helix domains; Region: HTH; cl00088 272562001784 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; cl01589 272562001785 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_33; cd04692 272562001786 nudix motif; other site 272562001787 FeoA domain; Region: FeoA; cl00838 272562001788 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 272562001789 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 272562001790 G1 box; other site 272562001791 GTP/Mg2+ binding site [chemical binding]; other site 272562001792 Switch I region; other site 272562001793 G2 box; other site 272562001794 G3 box; other site 272562001795 Switch II region; other site 272562001796 G4 box; other site 272562001797 G5 box; other site 272562001798 Nucleoside recognition; Region: Gate; cl00486 272562001799 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 272562001800 Nucleoside recognition; Region: Gate; cl00486 272562001801 Protein of unknown function (DUF3189); Region: DUF3189; pfam11385 272562001802 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272562001803 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 272562001804 active site 272562001805 phosphorylation site [posttranslational modification] 272562001806 intermolecular recognition site; other site 272562001807 dimerization interface [polypeptide binding]; other site 272562001808 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 272562001809 DNA binding site [nucleotide binding] 272562001810 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272562001811 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 272562001812 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 272562001813 dimer interface [polypeptide binding]; other site 272562001814 phosphorylation site [posttranslational modification] 272562001815 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 272562001816 ATP binding site [chemical binding]; other site 272562001817 Mg2+ binding site [ion binding]; other site 272562001818 G-X-G motif; other site 272562001819 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272562001820 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 272562001821 Walker A/P-loop; other site 272562001822 ATP binding site [chemical binding]; other site 272562001823 Q-loop/lid; other site 272562001824 ABC transporter signature motif; other site 272562001825 Walker B; other site 272562001826 D-loop; other site 272562001827 H-loop/switch region; other site 272562001828 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 272562001829 FtsX-like permease family; Region: FtsX; pfam02687 272562001830 FtsX-like permease family; Region: FtsX; pfam02687 272562001831 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 272562001832 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 272562001833 Walker A motif; other site 272562001834 ATP binding site [chemical binding]; other site 272562001835 Walker B motif; other site 272562001836 arginine finger; other site 272562001837 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 272562001838 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272562001839 Helix-turn-helix domains; Region: HTH; cl00088 272562001840 H+ Antiporter protein; Region: 2A0121; TIGR00900 272562001841 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 272562001842 putative substrate translocation pore; other site 272562001843 Propionate catabolism activator; Region: PrpR_N; pfam06506 272562001844 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 272562001845 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 272562001846 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 272562001847 Walker A motif; other site 272562001848 ATP binding site [chemical binding]; other site 272562001849 Walker B motif; other site 272562001850 arginine finger; other site 272562001851 Helix-turn-helix domains; Region: HTH; cl00088 272562001852 Domain of unknown function DUF21; Region: DUF21; pfam01595 272562001853 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 272562001854 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 272562001855 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 272562001856 DNA binding residues [nucleotide binding] 272562001857 dimer interface [polypeptide binding]; other site 272562001858 metal binding site [ion binding]; metal-binding site 272562001859 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 272562001860 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562001861 NAD(P) binding site [chemical binding]; other site 272562001862 active site 272562001863 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 272562001864 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 272562001865 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 272562001866 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 272562001867 protein binding site [polypeptide binding]; other site 272562001868 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 272562001869 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 272562001870 non-specific DNA binding site [nucleotide binding]; other site 272562001871 salt bridge; other site 272562001872 sequence-specific DNA binding site [nucleotide binding]; other site 272562001873 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 272562001874 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 272562001875 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 272562001876 motif II; other site 272562001877 Nucleoside recognition; Region: Gate; cl00486 272562001878 Nucleoside recognition; Region: Gate; cl00486 272562001879 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 272562001880 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; cl03075 272562001881 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 272562001882 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 272562001883 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 272562001884 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 272562001885 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 272562001886 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 272562001887 metal ion-dependent adhesion site (MIDAS); other site 272562001888 Double zinc ribbon; Region: DZR; pfam12773 272562001889 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 272562001890 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272562001891 Zn2+ binding site [ion binding]; other site 272562001892 Mg2+ binding site [ion binding]; other site 272562001893 peptidase T; Region: peptidase-T; TIGR01882 272562001894 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 272562001895 metal binding site [ion binding]; metal-binding site 272562001896 dimer interface [polypeptide binding]; other site 272562001897 Sulfatase; Region: Sulfatase; cl10460 272562001898 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 272562001899 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 272562001900 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 272562001901 ATP cone domain; Region: ATP-cone; pfam03477 272562001902 Class III ribonucleotide reductase; Region: RNR_III; cd01675 272562001903 effector binding site; other site 272562001904 active site 272562001905 Zn binding site [ion binding]; other site 272562001906 glycine loop; other site 272562001907 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 272562001908 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 272562001909 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272562001910 CAAX protease self-immunity; Region: Abi; cl00558 272562001911 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 272562001912 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 272562001913 active site 272562001914 substrate binding site [chemical binding]; other site 272562001915 metal binding site [ion binding]; metal-binding site 272562001916 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 272562001917 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 272562001918 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 272562001919 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 272562001920 putative carbohydrate kinase; Provisional; Region: PRK10565 272562001921 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 272562001922 putative substrate binding site [chemical binding]; other site 272562001923 putative ATP binding site [chemical binding]; other site 272562001924 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 272562001925 alanine racemase; Reviewed; Region: alr; PRK00053 272562001926 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 272562001927 active site 272562001928 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272562001929 dimer interface [polypeptide binding]; other site 272562001930 substrate binding site [chemical binding]; other site 272562001931 catalytic residues [active] 272562001932 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 272562001933 PemK-like protein; Region: PemK; cl00995 272562001934 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 272562001935 thiamine phosphate binding site [chemical binding]; other site 272562001936 active site 272562001937 pyrophosphate binding site [ion binding]; other site 272562001938 Uncharacterized conserved protein [Function unknown]; Region: COG1284 272562001939 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272562001940 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272562001941 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 272562001942 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 272562001943 FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane. The FtsE/X transporter is thought to be involved in cell division and...; Region: ABC_FtsE_transporter; cd03292 272562001944 Walker A/P-loop; other site 272562001945 ATP binding site [chemical binding]; other site 272562001946 Q-loop/lid; other site 272562001947 ABC transporter signature motif; other site 272562001948 Walker B; other site 272562001949 D-loop; other site 272562001950 H-loop/switch region; other site 272562001951 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 272562001952 FtsX-like permease family; Region: FtsX; pfam02687 272562001953 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 272562001954 C-terminal peptidase (prc); Region: prc; TIGR00225 272562001955 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 272562001956 protein binding site [polypeptide binding]; other site 272562001957 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 272562001958 Catalytic dyad [active] 272562001959 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 272562001960 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 272562001961 protein binding site [polypeptide binding]; other site 272562001962 Bacitracin resistance protein BacA; Region: BacA; cl00858 272562001963 excinuclease ABC subunit B; Provisional; Region: PRK05298 272562001964 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 272562001965 ATP binding site [chemical binding]; other site 272562001966 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 272562001967 nucleotide binding region [chemical binding]; other site 272562001968 ATP-binding site [chemical binding]; other site 272562001969 Ultra-violet resistance protein B; Region: UvrB; pfam12344 272562001970 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 272562001971 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 272562001972 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 272562001973 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 272562001974 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 272562001975 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 272562001976 phosphopeptide binding site; other site 272562001977 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 272562001978 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 272562001979 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272562001980 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 272562001981 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 272562001982 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 272562001983 GIY-YIG motif/motif A; other site 272562001984 active site 272562001985 catalytic site [active] 272562001986 putative DNA binding site [nucleotide binding]; other site 272562001987 metal binding site [ion binding]; metal-binding site 272562001988 UvrB/uvrC motif; Region: UVR; pfam02151 272562001989 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 272562001990 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 272562001991 putative hydrolase; Validated; Region: PRK09248 272562001992 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 272562001993 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562001994 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 272562001995 FAD binding domain; Region: FAD_binding_4; pfam01565 272562001996 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 272562001997 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 272562001998 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 272562001999 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 272562002000 Uncharacterised protein family UPF0052; Region: UPF0052; pfam01933 272562002001 phosphate binding site [ion binding]; other site 272562002002 putative substrate binding pocket [chemical binding]; other site 272562002003 dimer interface [polypeptide binding]; other site 272562002004 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 272562002005 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 272562002006 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 272562002007 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272562002008 DNA-binding site [nucleotide binding]; DNA binding site 272562002009 DRTGG domain; Region: DRTGG; cl12147 272562002010 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally...; Region: CBS_pair_DRTGG_assoc; cd04596 272562002011 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 272562002012 active site 2 [active] 272562002013 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 272562002014 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 272562002015 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 272562002016 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 272562002017 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 272562002018 generic binding surface II; other site 272562002019 generic binding surface I; other site 272562002020 6-phosphofructokinase; Provisional; Region: PRK03202 272562002021 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 272562002022 active site 272562002023 ADP/pyrophosphate binding site [chemical binding]; other site 272562002024 dimerization interface [polypeptide binding]; other site 272562002025 allosteric effector site; other site 272562002026 fructose-1,6-bisphosphate binding site; other site 272562002027 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 272562002028 pyruvate kinase; Provisional; Region: PRK05826 272562002029 domain interfaces; other site 272562002030 active site 272562002031 dihydroorotase; Validated; Region: pyrC; PRK09357 272562002032 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 272562002033 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 272562002034 active site 272562002035 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 272562002036 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 272562002037 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 272562002038 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 272562002039 active site 272562002040 motif I; other site 272562002041 motif II; other site 272562002042 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272562002043 TRAM domain; Region: TRAM; cl01282 272562002044 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 272562002045 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 272562002046 S-adenosylmethionine binding site [chemical binding]; other site 272562002047 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272562002048 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 272562002049 active site 272562002050 phosphorylation site [posttranslational modification] 272562002051 intermolecular recognition site; other site 272562002052 dimerization interface [polypeptide binding]; other site 272562002053 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 272562002054 DNA binding site [nucleotide binding] 272562002055 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272562002056 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 272562002057 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 272562002058 ATP binding site [chemical binding]; other site 272562002059 Mg2+ binding site [ion binding]; other site 272562002060 G-X-G motif; other site 272562002061 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272562002062 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 272562002063 Walker A/P-loop; other site 272562002064 ATP binding site [chemical binding]; other site 272562002065 Q-loop/lid; other site 272562002066 ABC transporter signature motif; other site 272562002067 Walker B; other site 272562002068 D-loop; other site 272562002069 H-loop/switch region; other site 272562002070 FtsX-like permease family; Region: FtsX; pfam02687 272562002071 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 272562002072 FtsX-like permease family; Region: FtsX; pfam02687 272562002073 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 272562002074 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 272562002075 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 272562002076 Domain of unknown function (DUF303); Region: DUF303; pfam03629 272562002077 Helix-turn-helix domains; Region: HTH; cl00088 272562002078 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 272562002079 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 272562002080 putative active site [active] 272562002081 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 272562002082 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 272562002083 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 272562002084 active site turn [active] 272562002085 phosphorylation site [posttranslational modification] 272562002086 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 272562002087 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 272562002088 NAD binding site [chemical binding]; other site 272562002089 sugar binding site [chemical binding]; other site 272562002090 divalent metal binding site [ion binding]; other site 272562002091 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 272562002092 dimer interface [polypeptide binding]; other site 272562002093 phosphoenolpyruvate synthase; Validated; Region: PRK06241 272562002094 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 272562002095 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 272562002096 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272562002097 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 272562002098 classical (c) SDR, subgroup 2; Region: SDR_c2; cd05370 272562002099 putative NAD(P) binding site [chemical binding]; other site 272562002100 active site 272562002101 Endoglucanase E-like members of the SGNH hydrolase family; Endoglucanase E catalyzes the endohydrolysis of 1,4-beta-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans; Region: Endoglucanase_E_like; cd01831 272562002102 catalytic triad [active] 272562002103 active site 272562002104 oxyanion hole [active] 272562002105 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; cl09200 272562002106 Clostridial hydrophobic W; Region: ChW; cl02763 272562002107 Clostridial hydrophobic W; Region: ChW; cl02763 272562002108 Clostridial hydrophobic W; Region: ChW; cl02763 272562002109 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; cl09200 272562002110 Clostridial hydrophobic W; Region: ChW; cl02763 272562002111 Clostridial hydrophobic W; Region: ChW; cl02763 272562002112 Clostridial hydrophobic W; Region: ChW; cl02763 272562002113 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; cl09200 272562002114 Clostridial hydrophobic W; Region: ChW; cl02763 272562002115 Clostridial hydrophobic W; Region: ChW; cl02763 272562002116 Clostridial hydrophobic W; Region: ChW; cl02763 272562002117 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 272562002118 S-adenosylmethionine binding site [chemical binding]; other site 272562002119 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 272562002120 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 272562002121 dimerization interface [polypeptide binding]; other site 272562002122 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272562002123 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272562002124 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 272562002125 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272562002126 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; cl01839 272562002127 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_23; cd09011 272562002128 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272562002129 Domain of unknown function (DUF955); Region: DUF955; cl01076 272562002130 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 272562002131 non-specific DNA binding site [nucleotide binding]; other site 272562002132 salt bridge; other site 272562002133 sequence-specific DNA binding site [nucleotide binding]; other site 272562002134 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 272562002135 DNA binding residues [nucleotide binding] 272562002136 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 272562002137 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 272562002138 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 272562002139 Haemolysin XhlA; Region: XhlA; pfam10779 272562002140 Lyc muramidase is an autolytic lysozyme (autolysin) from Clostridium acetobutylicum encoded by the lyc gene. Lyc has a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan...; Region: GH25_Lyc-like; cd06525 272562002141 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 272562002142 active site 272562002143 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 272562002144 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272562002145 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272562002146 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 272562002147 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 272562002148 Peptidase family M48; Region: Peptidase_M48; cl12018 272562002149 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 272562002150 Helix-turn-helix domains; Region: HTH; cl00088 272562002151 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 272562002152 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 272562002153 putative substrate translocation pore; other site 272562002154 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 272562002155 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 272562002156 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 272562002157 Dockerin type I repeat; Region: Dockerin_1; pfam00404 272562002158 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272562002159 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 272562002160 active site 272562002161 phosphorylation site [posttranslational modification] 272562002162 intermolecular recognition site; other site 272562002163 dimerization interface [polypeptide binding]; other site 272562002164 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 272562002165 DNA binding site [nucleotide binding] 272562002166 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 272562002167 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 272562002168 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 272562002169 dimer interface [polypeptide binding]; other site 272562002170 phosphorylation site [posttranslational modification] 272562002171 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 272562002172 ATP binding site [chemical binding]; other site 272562002173 Mg2+ binding site [ion binding]; other site 272562002174 G-X-G motif; other site 272562002175 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 272562002176 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 272562002177 S-adenosylmethionine binding site [chemical binding]; other site 272562002178 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 272562002179 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562002180 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 272562002181 CAT RNA binding domain; Region: CAT_RBD; cl03904 272562002182 transcriptional antiterminator BglG; Provisional; Region: PRK09772 272562002183 PRD domain; Region: PRD; cl15445 272562002184 PRD domain; Region: PRD; cl15445 272562002185 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 272562002186 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 272562002187 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 272562002188 active site turn [active] 272562002189 phosphorylation site [posttranslational modification] 272562002190 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 272562002191 HPr interaction site; other site 272562002192 glycerol kinase (GK) interaction site [polypeptide binding]; other site 272562002193 active site 272562002194 phosphorylation site [posttranslational modification] 272562002195 Helix-turn-helix domains; Region: HTH; cl00088 272562002196 Protein of unknown function (DUF1700); Region: DUF1700; cl01933 272562002197 Uncharacterized conserved protein [Function unknown]; Region: COG3595 272562002198 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 272562002199 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 272562002200 substrate binding site [chemical binding]; other site 272562002201 active site 272562002202 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl00126 272562002203 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 272562002204 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 272562002205 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 272562002206 substrate binding pocket [chemical binding]; other site 272562002207 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 272562002208 B12 binding site [chemical binding]; other site 272562002209 cobalt ligand [ion binding]; other site 272562002210 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 272562002211 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 272562002212 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562002213 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 272562002214 Uncharacterized conserved protein [Function unknown]; Region: COG2718 272562002215 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 272562002216 metal ion-dependent adhesion site (MIDAS); other site 272562002217 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 272562002218 SpoVR like protein; Region: SpoVR; pfam04293 272562002219 CobD/Cbib protein; Region: CobD_Cbib; cl00561 272562002220 Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]; Region: CbiK; COG4822 272562002221 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 272562002222 active site 272562002223 C-terminal domain interface [polypeptide binding]; other site 272562002224 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 272562002225 active site 272562002226 N-terminal domain interface [polypeptide binding]; other site 272562002227 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 272562002228 Response regulator receiver domain; Region: Response_reg; pfam00072 272562002229 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 272562002230 active site 272562002231 phosphorylation site [posttranslational modification] 272562002232 intermolecular recognition site; other site 272562002233 dimerization interface [polypeptide binding]; other site 272562002234 Chemotaxis phosphatase CheX; Region: CheX; cl15816 272562002235 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 272562002236 Chemotaxis phosphatase CheX; Region: CheX; cl15816 272562002237 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272562002238 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 272562002239 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 272562002240 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 272562002241 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 272562002242 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 272562002243 catalytic motif [active] 272562002244 Zn binding site [ion binding]; other site 272562002245 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 272562002246 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 272562002247 Lumazine binding domain; Region: Lum_binding; pfam00677 272562002248 Lumazine binding domain; Region: Lum_binding; pfam00677 272562002249 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 272562002250 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 272562002251 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 272562002252 dimerization interface [polypeptide binding]; other site 272562002253 active site 272562002254 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 272562002255 homopentamer interface [polypeptide binding]; other site 272562002256 active site 272562002257 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 272562002258 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 272562002259 active site 272562002260 multimer interface [polypeptide binding]; other site 272562002261 Glutamine amidotransferase [Amino acid transport and metabolism]; Region: HisH; COG0118 272562002262 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 272562002263 predicted active site [active] 272562002264 catalytic triad [active] 272562002265 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 272562002266 Amino acid permease; Region: AA_permease; cl00524 272562002267 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 272562002268 Predicted transcriptional regulators [Transcription]; Region: COG1725 272562002269 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272562002270 DNA-binding site [nucleotide binding]; DNA binding site 272562002271 Predicted membrane protein [General function prediction only]; Region: COG4194 272562002272 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 272562002273 FtsH Extracellular; Region: FtsH_ext; pfam06480 272562002274 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 272562002275 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 272562002276 Walker A motif; other site 272562002277 ATP binding site [chemical binding]; other site 272562002278 Walker B motif; other site 272562002279 arginine finger; other site 272562002280 Peptidase family M41; Region: Peptidase_M41; pfam01434 272562002281 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 272562002282 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562002283 Family description; Region: UvrD_C_2; cl15862 272562002284 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272562002285 PAP2_like_3 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria and archaea, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_3; cd03393 272562002286 active site 272562002287 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 272562002288 Cation efflux family; Region: Cation_efflux; cl00316 272562002289 Cation efflux family; Region: Cation_efflux; cl00316 272562002290 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 272562002291 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 272562002292 active site 272562002293 metal binding site [ion binding]; metal-binding site 272562002294 diaminopimelate decarboxylase; Region: lysA; TIGR01048 272562002295 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 272562002296 active site 272562002297 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272562002298 substrate binding site [chemical binding]; other site 272562002299 catalytic residues [active] 272562002300 dimer interface [polypeptide binding]; other site 272562002301 Uncharacterized protein conserved in bacteria (DUF2329); Region: DUF2329; pfam10091 272562002302 Putative carbohydrate binding domain; Region: CBM_X; cl05621 272562002303 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 272562002304 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 272562002305 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 272562002306 Putative carbohydrate binding domain; Region: CBM_X; cl05621 272562002307 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 272562002308 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 272562002309 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 272562002310 LrgB-like family; Region: LrgB; cl00596 272562002311 LrgA family; Region: LrgA; cl00608 272562002312 Coat F domain; Region: Coat_F; cl15836 272562002313 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 272562002314 HEAT repeats; Region: HEAT_2; pfam13646 272562002315 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 272562002316 dimer interface [polypeptide binding]; other site 272562002317 conserved gate region; other site 272562002318 putative PBP binding loops; other site 272562002319 ABC-ATPase subunit interface; other site 272562002320 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 272562002321 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 272562002322 Walker A/P-loop; other site 272562002323 ATP binding site [chemical binding]; other site 272562002324 Q-loop/lid; other site 272562002325 ABC transporter signature motif; other site 272562002326 Walker B; other site 272562002327 D-loop; other site 272562002328 H-loop/switch region; other site 272562002329 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 272562002330 NMT1-like family; Region: NMT1_2; cl15260 272562002331 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 272562002332 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 272562002333 polyphosphate kinase; Provisional; Region: PRK05443 272562002334 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 272562002335 putative domain interface [polypeptide binding]; other site 272562002336 putative active site [active] 272562002337 catalytic site [active] 272562002338 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 272562002339 putative domain interface [polypeptide binding]; other site 272562002340 putative active site [active] 272562002341 catalytic site [active] 272562002342 Pro-kumamolisin, activation domain; Region: Pro-kuma_activ; cl07889 272562002343 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 272562002344 active site 272562002345 catalytic triad [active] 272562002346 calcium binding site [ion binding]; other site 272562002347 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 272562002348 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 272562002349 active site 272562002350 HIGH motif; other site 272562002351 dimer interface [polypeptide binding]; other site 272562002352 KMSKS motif; other site 272562002353 Transcriptional regulators [Transcription]; Region: MarR; COG1846 272562002354 Helix-turn-helix domains; Region: HTH; cl00088 272562002355 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 272562002356 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 272562002357 sugar phosphate phosphatase; Provisional; Region: PRK10513 272562002358 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 272562002359 active site 272562002360 motif I; other site 272562002361 motif II; other site 272562002362 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272562002363 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 272562002364 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 272562002365 G1 box; other site 272562002366 putative GEF interaction site [polypeptide binding]; other site 272562002367 GTP/Mg2+ binding site [chemical binding]; other site 272562002368 Switch I region; other site 272562002369 G2 box; other site 272562002370 G3 box; other site 272562002371 Switch II region; other site 272562002372 G4 box; other site 272562002373 G5 box; other site 272562002374 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 272562002375 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272562002376 metal binding site [ion binding]; metal-binding site 272562002377 active site 272562002378 I-site; other site 272562002379 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 272562002380 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 272562002381 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 272562002382 motif II; other site 272562002383 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 272562002384 active site 272562002385 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 272562002386 Probable zinc-binding domain; Region: zf-trcl; pfam13451 272562002387 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 272562002388 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272562002389 metal binding site [ion binding]; metal-binding site 272562002390 active site 272562002391 I-site; other site 272562002392 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 272562002393 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 272562002394 active site 272562002395 HIGH motif; other site 272562002396 dimer interface [polypeptide binding]; other site 272562002397 KMSKS motif; other site 272562002398 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 272562002399 RNA binding surface [nucleotide binding]; other site 272562002400 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 272562002401 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 272562002402 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272562002403 active site 272562002404 metal binding site [ion binding]; metal-binding site 272562002405 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 272562002406 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 272562002407 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 272562002408 synthetase active site [active] 272562002409 NTP binding site [chemical binding]; other site 272562002410 metal binding site [ion binding]; metal-binding site 272562002411 Spore germination protein; Region: Spore_permease; cl15802 272562002412 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 272562002413 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 272562002414 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 272562002415 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 272562002416 HIGH motif; other site 272562002417 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 272562002418 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272562002419 active site 272562002420 KMSKS motif; other site 272562002421 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 272562002422 tRNA binding surface [nucleotide binding]; other site 272562002423 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 272562002424 HSP70 interaction site [polypeptide binding]; other site 272562002425 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 272562002426 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 272562002427 putative active site [active] 272562002428 putative metal binding residues [ion binding]; other site 272562002429 putative triphosphate binding site [ion binding]; other site 272562002430 signature motif; other site 272562002431 dimer interface [polypeptide binding]; other site 272562002432 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 272562002433 VanZ like family; Region: VanZ; cl01971 272562002434 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272562002435 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 272562002436 active site 272562002437 phosphorylation site [posttranslational modification] 272562002438 intermolecular recognition site; other site 272562002439 dimerization interface [polypeptide binding]; other site 272562002440 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 272562002441 DNA binding site [nucleotide binding] 272562002442 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272562002443 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 272562002444 ATP binding site [chemical binding]; other site 272562002445 Mg2+ binding site [ion binding]; other site 272562002446 G-X-G motif; other site 272562002447 Transposase domain (DUF772); Region: DUF772; cl12084 272562002448 Transposase domain (DUF772); Region: DUF772; cl15789 272562002449 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 272562002450 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 272562002451 FeS/SAM binding site; other site 272562002452 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; cl14869 272562002453 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 272562002454 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 272562002455 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 272562002456 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272562002457 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562002458 Walker A/P-loop; other site 272562002459 ATP binding site [chemical binding]; other site 272562002460 Q-loop/lid; other site 272562002461 ABC transporter signature motif; other site 272562002462 Walker B; other site 272562002463 D-loop; other site 272562002464 H-loop/switch region; other site 272562002465 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272562002466 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 272562002467 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272562002468 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 272562002469 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 272562002470 dimer interface [polypeptide binding]; other site 272562002471 conserved gate region; other site 272562002472 ABC-ATPase subunit interface; other site 272562002473 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 272562002474 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 272562002475 dimer interface [polypeptide binding]; other site 272562002476 conserved gate region; other site 272562002477 putative PBP binding loops; other site 272562002478 ABC-ATPase subunit interface; other site 272562002479 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 272562002480 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272562002481 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272562002482 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 272562002483 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 272562002484 Protein of unknown function (DUF421); Region: DUF421; cl00990 272562002485 Threonyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ThrS; COG0441 272562002486 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 272562002487 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 272562002488 active site 272562002489 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 272562002490 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 272562002491 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 272562002492 putative L-serine binding site [chemical binding]; other site 272562002493 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 272562002494 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 272562002495 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 272562002496 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 272562002497 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 272562002498 FOG: CBS domain [General function prediction only]; Region: COG0517 272562002499 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 272562002500 putative lipid kinase; Reviewed; Region: PRK13059 272562002501 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 272562002502 Nitrogen regulatory protein P-II; Region: P-II; cl00412 272562002503 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 272562002504 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 272562002505 MgtE intracellular N domain; Region: MgtE_N; cl15244 272562002506 FOG: CBS domain [General function prediction only]; Region: COG0517 272562002507 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 272562002508 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 272562002509 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 272562002510 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 272562002511 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272562002512 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 272562002513 serine O-acetyltransferase; Region: cysE; TIGR01172 272562002514 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 272562002515 trimer interface [polypeptide binding]; other site 272562002516 active site 272562002517 substrate binding site [chemical binding]; other site 272562002518 CoA binding site [chemical binding]; other site 272562002519 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 272562002520 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 272562002521 putative acyl-acceptor binding pocket; other site 272562002522 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 272562002523 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 272562002524 minor groove reading motif; other site 272562002525 helix-hairpin-helix signature motif; other site 272562002526 substrate binding pocket [chemical binding]; other site 272562002527 active site 272562002528 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 272562002529 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 272562002530 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 272562002531 putative oligomer interface [polypeptide binding]; other site 272562002532 putative active site [active] 272562002533 metal binding site [ion binding]; metal-binding site 272562002534 Uncharacterized vancomycin resistance protein [Defense mechanisms]; Region: COG2720 272562002535 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 272562002536 VanW like protein; Region: VanW; pfam04294 272562002537 Glucuronate isomerase; Region: UxaC; cl00829 272562002538 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272562002539 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272562002540 DNA binding site [nucleotide binding] 272562002541 domain linker motif; other site 272562002542 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 272562002543 dimerization interface [polypeptide binding]; other site 272562002544 ligand binding site [chemical binding]; other site 272562002545 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 272562002546 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 272562002547 putative substrate translocation pore; other site 272562002548 altronate oxidoreductase; Provisional; Region: PRK03643 272562002549 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 272562002550 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 272562002551 SAF domain; Region: SAF; cl00555 272562002552 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 272562002553 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 272562002554 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 272562002555 aldose 1-epimerase superfamily; Region: Aldose_epim; cd01081 272562002556 active site 272562002557 catalytic residues [active] 272562002558 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 272562002559 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 272562002560 active site 272562002561 motif I; other site 272562002562 motif II; other site 272562002563 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272562002564 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 272562002565 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 272562002566 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 272562002567 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 272562002568 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 272562002569 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 272562002570 ligand binding site [chemical binding]; other site 272562002571 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 272562002572 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 272562002573 Walker A/P-loop; other site 272562002574 ATP binding site [chemical binding]; other site 272562002575 Q-loop/lid; other site 272562002576 ABC transporter signature motif; other site 272562002577 Walker B; other site 272562002578 D-loop; other site 272562002579 H-loop/switch region; other site 272562002580 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 272562002581 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 272562002582 TM-ABC transporter signature motif; other site 272562002583 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 272562002584 TM-ABC transporter signature motif; other site 272562002585 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 272562002586 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 272562002587 putative sugar binding sites [chemical binding]; other site 272562002588 Q-X-W motif; other site 272562002589 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 272562002590 putative sugar binding sites [chemical binding]; other site 272562002591 Q-X-W motif; other site 272562002592 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 272562002593 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 272562002594 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 272562002595 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 272562002596 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 272562002597 Predicted transcriptional regulator [Transcription]; Region: COG3388 272562002598 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 272562002599 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 272562002600 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562002601 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 272562002602 Phosphoglycerate kinase; Region: PGK; pfam00162 272562002603 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 272562002604 substrate binding site [chemical binding]; other site 272562002605 hinge regions; other site 272562002606 ADP binding site [chemical binding]; other site 272562002607 catalytic site [active] 272562002608 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 272562002609 substrate binding site [chemical binding]; other site 272562002610 dimer interface [polypeptide binding]; other site 272562002611 catalytic triad [active] 272562002612 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 272562002613 Sulfatase; Region: Sulfatase; cl10460 272562002614 enolase; Provisional; Region: eno; PRK00077 272562002615 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 272562002616 dimer interface [polypeptide binding]; other site 272562002617 metal binding site [ion binding]; metal-binding site 272562002618 substrate binding pocket [chemical binding]; other site 272562002619 Preprotein translocase SecG subunit; Region: SecG; cl09123 272562002620 ribonuclease R; Region: RNase_R; TIGR02063 272562002621 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 272562002622 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 272562002623 RNB domain; Region: RNB; pfam00773 272562002624 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 272562002625 RNA binding site [nucleotide binding]; other site 272562002626 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 272562002627 SmpB-tmRNA interface; other site 272562002628 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 272562002629 dimer interface [polypeptide binding]; other site 272562002630 FMN binding site [chemical binding]; other site 272562002631 NADPH bind site [chemical binding]; other site 272562002632 Epoxide hydrolase N terminus; Region: EHN; pfam06441 272562002633 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 272562002634 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 272562002635 Helix-turn-helix domains; Region: HTH; cl00088 272562002636 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272562002637 Helix-turn-helix domains; Region: HTH; cl00088 272562002638 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 272562002639 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 272562002640 putative transport protein YifK; Provisional; Region: PRK10746 272562002641 tellurite resistance protein TehB; Provisional; Region: PRK12335 272562002642 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 272562002643 S-adenosylmethionine binding site [chemical binding]; other site 272562002644 Domain of unknown function (DUF4317); Region: DUF4317; pfam14199 272562002645 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 272562002646 Domain of unknown function DUF20; Region: UPF0118; cl00465 272562002647 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 272562002648 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562002649 NAD(P) binding site [chemical binding]; other site 272562002650 active site 272562002651 Uncharacterized protein conserved in bacteria (DUF2194); Region: DUF2194; pfam09960 272562002652 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4878 272562002653 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG4878; cd10924 272562002654 NodB motif; other site 272562002655 putative active site [active] 272562002656 putative catalytic site [active] 272562002657 putative Zn binding site [ion binding]; other site 272562002658 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_3; cd03813 272562002659 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272562002660 Predicted membrane protein [Function unknown]; Region: COG4267 272562002661 TM1410 hypothetical-related protein; Region: DUF297; cl00997 272562002662 glutamate dehydrogenase; Provisional; Region: PRK09414 272562002663 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 272562002664 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 272562002665 NAD(P) binding site [chemical binding]; other site 272562002666 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 272562002667 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 272562002668 active site 272562002669 substrate binding site [chemical binding]; other site 272562002670 catalytic site [active] 272562002671 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; cl00038 272562002672 Protein of unknown function (DUF503); Region: DUF503; cl00669 272562002673 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272562002674 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 272562002675 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 272562002676 active site 272562002677 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 272562002678 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 272562002679 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 272562002680 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 272562002681 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272562002682 Helix-turn-helix domains; Region: HTH; cl00088 272562002683 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 272562002684 dimerization interface [polypeptide binding]; other site 272562002685 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 272562002686 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 272562002687 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 272562002688 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 272562002689 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272562002690 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 272562002691 FMN binding site [chemical binding]; other site 272562002692 dimer interface [polypeptide binding]; other site 272562002693 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 272562002694 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272562002695 Zn2+ binding site [ion binding]; other site 272562002696 Mg2+ binding site [ion binding]; other site 272562002697 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 272562002698 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 272562002699 putative substrate translocation pore; other site 272562002700 Adenylation domain of proteins similar to ATP-dependent polynucleotide ligases; Region: Adenylation_DNA_ligase_like; cl12015 272562002701 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272562002702 Zn2+ binding site [ion binding]; other site 272562002703 Mg2+ binding site [ion binding]; other site 272562002704 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562002705 AAA domain; Region: AAA_33; pfam13671 272562002706 active site 272562002707 SseB protein; Region: SseB; cl06279 272562002708 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272562002709 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272562002710 Bystin; Region: Bystin; pfam05291 272562002711 Tim44-like domain; Region: Tim44; cl09208 272562002712 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 272562002713 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 272562002714 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 272562002715 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272562002716 putative substrate translocation pore; other site 272562002717 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 272562002718 Helix-turn-helix domains; Region: HTH; cl00088 272562002719 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 272562002720 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562002721 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562002722 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 272562002723 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 272562002724 active site 272562002725 catalytic tetrad [active] 272562002726 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 272562002727 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 272562002728 DNA binding residues [nucleotide binding] 272562002729 putative dimer interface [polypeptide binding]; other site 272562002730 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 272562002731 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 272562002732 active site 272562002733 catalytic tetrad [active] 272562002734 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 272562002735 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272562002736 Helix-turn-helix domains; Region: HTH; cl00088 272562002737 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 272562002738 dimerization interface [polypeptide binding]; other site 272562002739 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 272562002740 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 272562002741 amphipathic channel; other site 272562002742 Asn-Pro-Ala signature motifs; other site 272562002743 cobalt transport protein CbiM; Provisional; Region: PRK07331 272562002744 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 272562002745 Cobalt transport protein; Region: CbiQ; cl00463 272562002746 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 272562002747 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 272562002748 Walker A/P-loop; other site 272562002749 ATP binding site [chemical binding]; other site 272562002750 Q-loop/lid; other site 272562002751 ABC transporter signature motif; other site 272562002752 Walker B; other site 272562002753 D-loop; other site 272562002754 H-loop/switch region; other site 272562002755 Protein of unknown function DUF111; Region: DUF111; cl03398 272562002756 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 272562002757 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 272562002758 Ligand Binding Site [chemical binding]; other site 272562002759 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 272562002760 AIR carboxylase; Region: AIRC; cl00310 272562002761 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 272562002762 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 272562002763 trimer interface [polypeptide binding]; other site 272562002764 active site 272562002765 substrate binding site [chemical binding]; other site 272562002766 CoA binding site [chemical binding]; other site 272562002767 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 272562002768 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562002769 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 272562002770 nucleotide binding region [chemical binding]; other site 272562002771 ATP-binding site [chemical binding]; other site 272562002772 Mitochondrial degradasome RNA helicase subunit C terminal; Region: SUV3_C; pfam12513 272562002773 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 272562002774 catalytic triad [active] 272562002775 conserved cis-peptide bond; other site 272562002776 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 272562002777 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 272562002778 active site 272562002779 HIGH motif; other site 272562002780 dimer interface [polypeptide binding]; other site 272562002781 KMSKS motif; other site 272562002782 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 272562002783 RNA binding surface [nucleotide binding]; other site 272562002784 Uncharacterized protein conserved in bacteria (DUF2262); Region: DUF2262; cl01757 272562002785 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 272562002786 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 272562002787 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 272562002788 DEAD-like helicases superfamily; Region: DEXDc; smart00487 272562002789 ATP binding site [chemical binding]; other site 272562002790 Mg++ binding site [ion binding]; other site 272562002791 motif III; other site 272562002792 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 272562002793 nucleotide binding region [chemical binding]; other site 272562002794 ATP-binding site [chemical binding]; other site 272562002795 Domain of unknown function (DUF2382); Region: DUF2382; cl01590 272562002796 Domain of unknown function (DUF2382); Region: DUF2382; cl01590 272562002797 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 272562002798 ABC-ATPase subunit interface; other site 272562002799 dimer interface [polypeptide binding]; other site 272562002800 putative PBP binding regions; other site 272562002801 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 272562002802 ABC-ATPase subunit interface; other site 272562002803 dimer interface [polypeptide binding]; other site 272562002804 putative PBP binding regions; other site 272562002805 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 272562002806 Periplasmic binding protein FeuA. These proteins have predicted to function as initial receptors in ABC transport of metal ions in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: FeuA; cd01138 272562002807 putative ligand binding residues [chemical binding]; other site 272562002808 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 272562002809 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 272562002810 Walker A/P-loop; other site 272562002811 ATP binding site [chemical binding]; other site 272562002812 Q-loop/lid; other site 272562002813 ABC transporter signature motif; other site 272562002814 Walker B; other site 272562002815 D-loop; other site 272562002816 H-loop/switch region; other site 272562002817 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 272562002818 homodimer interface [polypeptide binding]; other site 272562002819 substrate-cofactor binding pocket; other site 272562002820 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562002821 catalytic residue [active] 272562002822 Plant protein of unknown function (DUF946); Region: DUF946; pfam06101 272562002823 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 272562002824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562002825 NAD(P) binding site [chemical binding]; other site 272562002826 active site 272562002827 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 272562002828 active site 272562002829 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 272562002830 Phosphoenolpyruvate synthase/pyruvate phosphate dikinase [Carbohydrate transport and metabolism]; Region: PpsA; COG0574 272562002831 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 272562002832 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 272562002833 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 272562002834 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 272562002835 UbiA prenyltransferase family; Region: UbiA; cl00337 272562002836 phosphoenolpyruvate synthase; Validated; Region: PRK06241 272562002837 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 272562002838 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 272562002839 Pectate lyase [Carbohydrate transport and metabolism]; Region: PelB; COG3866 272562002840 Pectate lyase; Region: Pec_lyase_C; cl01593 272562002841 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 272562002842 Cache domain; Region: Cache_1; pfam02743 272562002843 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 272562002844 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 272562002845 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272562002846 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 272562002847 DNA-binding site [nucleotide binding]; DNA binding site 272562002848 RNA-binding motif; other site 272562002849 HupF/HypC family; Region: HupF_HypC; cl00394 272562002850 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 272562002851 dimerization interface [polypeptide binding]; other site 272562002852 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 272562002853 ATP binding site [chemical binding]; other site 272562002854 Acylphosphatase; Region: Acylphosphatase; cl00551 272562002855 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 272562002856 HypF finger; Region: zf-HYPF; pfam07503 272562002857 HypF finger; Region: zf-HYPF; pfam07503 272562002858 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 272562002859 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypD; COG0409 272562002860 Hydrogenase formation hypA family; Region: HypD; cl12072 272562002861 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; cl03005 272562002862 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 272562002863 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 272562002864 dimer interface [polypeptide binding]; other site 272562002865 active site 272562002866 CoA binding pocket [chemical binding]; other site 272562002867 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272562002868 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272562002869 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272562002870 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 272562002871 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272562002872 metal binding site [ion binding]; metal-binding site 272562002873 active site 272562002874 I-site; other site 272562002875 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK06827 272562002876 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 272562002877 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272562002878 active site 272562002879 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 272562002880 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272562002881 Helix-turn-helix domains; Region: HTH; cl00088 272562002882 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272562002883 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 272562002884 Walker A/P-loop; other site 272562002885 ATP binding site [chemical binding]; other site 272562002886 Q-loop/lid; other site 272562002887 ABC transporter signature motif; other site 272562002888 Walker B; other site 272562002889 D-loop; other site 272562002890 H-loop/switch region; other site 272562002891 conserved hypothetical protein YmdA/YtgF; Region: YmdA_YtgF; TIGR03319 272562002892 FtsX-like permease family; Region: FtsX; pfam02687 272562002893 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 272562002894 FtsX-like permease family; Region: FtsX; pfam02687 272562002895 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 272562002896 catalytic residues [active] 272562002897 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 272562002898 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 272562002899 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 272562002900 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 272562002901 hypothetical protein; Provisional; Region: PRK08185 272562002902 intersubunit interface [polypeptide binding]; other site 272562002903 active site 272562002904 zinc binding site [ion binding]; other site 272562002905 Na+ binding site [ion binding]; other site 272562002906 VanZ like family; Region: VanZ; cl01971 272562002907 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272562002908 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 272562002909 active site 272562002910 phosphorylation site [posttranslational modification] 272562002911 intermolecular recognition site; other site 272562002912 dimerization interface [polypeptide binding]; other site 272562002913 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 272562002914 DNA binding site [nucleotide binding] 272562002915 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 272562002916 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 272562002917 dimer interface [polypeptide binding]; other site 272562002918 phosphorylation site [posttranslational modification] 272562002919 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 272562002920 ATP binding site [chemical binding]; other site 272562002921 Mg2+ binding site [ion binding]; other site 272562002922 G-X-G motif; other site 272562002923 Helix-turn-helix domains; Region: HTH; cl00088 272562002924 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 272562002925 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562002926 Walker A/P-loop; other site 272562002927 ATP binding site [chemical binding]; other site 272562002928 Q-loop/lid; other site 272562002929 ABC transporter signature motif; other site 272562002930 Walker B; other site 272562002931 D-loop; other site 272562002932 H-loop/switch region; other site 272562002933 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 272562002934 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272562002935 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 272562002936 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272562002937 Domain of unknown function (DUF386); Region: DUF386; cl01047 272562002938 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 272562002939 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 272562002940 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 272562002941 dimer interface [polypeptide binding]; other site 272562002942 putative PBP binding loops; other site 272562002943 ABC-ATPase subunit interface; other site 272562002944 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 272562002945 dimer interface [polypeptide binding]; other site 272562002946 conserved gate region; other site 272562002947 putative PBP binding loops; other site 272562002948 ABC-ATPase subunit interface; other site 272562002949 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 272562002950 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562002951 Walker A/P-loop; other site 272562002952 ATP binding site [chemical binding]; other site 272562002953 Q-loop/lid; other site 272562002954 ABC transporter signature motif; other site 272562002955 Walker B; other site 272562002956 D-loop; other site 272562002957 H-loop/switch region; other site 272562002958 TOBE domain; Region: TOBE_2; cl01440 272562002959 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 272562002960 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 272562002961 non-specific DNA binding site [nucleotide binding]; other site 272562002962 salt bridge; other site 272562002963 sequence-specific DNA binding site [nucleotide binding]; other site 272562002964 Cupin domain; Region: Cupin_2; cl09118 272562002965 Barnase, a member of the family of homologous microbial ribonucleases, catalyses the cleavage of single-stranded RNA via a two-step mechanism thought to be similar to that of pancreatic ribonuclease. The mechanism involves a transesterification to give a...; Region: barnase; cd00933 272562002966 active site 272562002967 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell; Region: Barstar; cd05142 272562002968 RNAase interaction site [polypeptide binding]; other site 272562002969 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 272562002970 Ferritin-like domain; Region: Ferritin; pfam00210 272562002971 ferroxidase diiron center [ion binding]; other site 272562002972 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 272562002973 MatE; Region: MatE; cl10513 272562002974 MatE; Region: MatE; cl10513 272562002975 Uncharacterized conserved protein [Function unknown]; Region: COG1284 272562002976 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272562002977 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272562002978 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 272562002979 Helix-turn-helix domains; Region: HTH; cl00088 272562002980 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 272562002981 dimer interface [polypeptide binding]; other site 272562002982 FMN binding site [chemical binding]; other site 272562002983 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 272562002984 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 272562002985 putative active site [active] 272562002986 metal binding site [ion binding]; metal-binding site 272562002987 amino acid transporter; Region: 2A0306; TIGR00909 272562002988 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 272562002989 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272562002990 Zn2+ binding site [ion binding]; other site 272562002991 Mg2+ binding site [ion binding]; other site 272562002992 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 272562002993 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 272562002994 G1 box; other site 272562002995 putative GEF interaction site [polypeptide binding]; other site 272562002996 GTP/Mg2+ binding site [chemical binding]; other site 272562002997 Switch I region; other site 272562002998 G2 box; other site 272562002999 G3 box; other site 272562003000 Switch II region; other site 272562003001 G4 box; other site 272562003002 G5 box; other site 272562003003 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 272562003004 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 272562003005 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 272562003006 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 272562003007 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272562003008 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 272562003009 motif II; other site 272562003010 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272562003011 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272562003012 DNA binding site [nucleotide binding] 272562003013 domain linker motif; other site 272562003014 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 272562003015 putative dimerization interface [polypeptide binding]; other site 272562003016 putative ligand binding site [chemical binding]; other site 272562003017 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 272562003018 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 272562003019 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 272562003020 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272562003021 Coenzyme A binding pocket [chemical binding]; other site 272562003022 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 272562003023 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272562003024 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 272562003025 active site 272562003026 phosphorylation site [posttranslational modification] 272562003027 intermolecular recognition site; other site 272562003028 dimerization interface [polypeptide binding]; other site 272562003029 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 272562003030 DNA binding site [nucleotide binding] 272562003031 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272562003032 The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme...; Region: ABC_BcrA_bacitracin_resist; cd03268 272562003033 Walker A/P-loop; other site 272562003034 ATP binding site [chemical binding]; other site 272562003035 Q-loop/lid; other site 272562003036 ABC transporter signature motif; other site 272562003037 Walker B; other site 272562003038 D-loop; other site 272562003039 H-loop/switch region; other site 272562003040 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272562003041 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 272562003042 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 272562003043 dimer interface [polypeptide binding]; other site 272562003044 phosphorylation site [posttranslational modification] 272562003045 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 272562003046 ATP binding site [chemical binding]; other site 272562003047 Mg2+ binding site [ion binding]; other site 272562003048 G-X-G motif; other site 272562003049 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 272562003050 Thylakoid formation protein; Region: ThylakoidFormat; cl12138 272562003051 Histidine kinase; Region: HisKA_3; pfam07730 272562003052 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 272562003053 ATP binding site [chemical binding]; other site 272562003054 Mg2+ binding site [ion binding]; other site 272562003055 G-X-G motif; other site 272562003056 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272562003057 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 272562003058 active site 272562003059 phosphorylation site [posttranslational modification] 272562003060 intermolecular recognition site; other site 272562003061 dimerization interface [polypeptide binding]; other site 272562003062 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 272562003063 DNA binding residues [nucleotide binding] 272562003064 dimerization interface [polypeptide binding]; other site 272562003065 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272562003066 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562003067 Walker A/P-loop; other site 272562003068 ATP binding site [chemical binding]; other site 272562003069 Q-loop/lid; other site 272562003070 ABC transporter signature motif; other site 272562003071 Walker B; other site 272562003072 D-loop; other site 272562003073 H-loop/switch region; other site 272562003074 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 272562003075 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 272562003076 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562003077 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 272562003078 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272562003079 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 272562003080 xanthine permease; Region: pbuX; TIGR03173 272562003081 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 272562003082 EamA-like transporter family; Region: EamA; cl01037 272562003083 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 272562003084 EamA-like transporter family; Region: EamA; cl01037 272562003085 Transcriptional regulators [Transcription]; Region: MarR; COG1846 272562003086 Helix-turn-helix domains; Region: HTH; cl00088 272562003087 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 272562003088 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 272562003089 S-adenosylmethionine binding site [chemical binding]; other site 272562003090 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 272562003091 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 272562003092 dimer interface [polypeptide binding]; other site 272562003093 conserved gate region; other site 272562003094 putative PBP binding loops; other site 272562003095 ABC-ATPase subunit interface; other site 272562003096 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 272562003097 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 272562003098 Walker A/P-loop; other site 272562003099 ATP binding site [chemical binding]; other site 272562003100 Q-loop/lid; other site 272562003101 ABC transporter signature motif; other site 272562003102 Walker B; other site 272562003103 D-loop; other site 272562003104 H-loop/switch region; other site 272562003105 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 272562003106 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 272562003107 substrate binding pocket [chemical binding]; other site 272562003108 membrane-bound complex binding site; other site 272562003109 hinge residues; other site 272562003110 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 272562003111 Haemolysin-III related; Region: HlyIII; cl03831 272562003112 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 272562003113 MatE; Region: MatE; cl10513 272562003114 MatE; Region: MatE; cl10513 272562003115 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 272562003116 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 272562003117 ligand binding site [chemical binding]; other site 272562003118 flexible hinge region; other site 272562003119 Helix-turn-helix domains; Region: HTH; cl00088 272562003120 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 272562003121 4Fe-4S binding domain; Region: Fer4; cl02805 272562003122 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 272562003123 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 272562003124 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 272562003125 active site 272562003126 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 272562003127 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 272562003128 Sulfatase; Region: Sulfatase; cl10460 272562003129 YibE/F-like protein; Region: YibE_F; cl02259 272562003130 YibE/F-like protein; Region: YibE_F; cl02259 272562003131 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 272562003132 NeuB family; Region: NeuB; cl00496 272562003133 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 272562003134 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562003135 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 272562003136 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 272562003137 active site 272562003138 dimer interface [polypeptide binding]; other site 272562003139 metal binding site [ion binding]; metal-binding site 272562003140 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 272562003141 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 272562003142 hinge; other site 272562003143 active site 272562003144 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 272562003145 Tetramer interface [polypeptide binding]; other site 272562003146 active site 272562003147 FMN-binding site [chemical binding]; other site 272562003148 Chorismate mutase type II; Region: CM_2; cl00693 272562003149 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 272562003150 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 272562003151 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 272562003152 shikimate binding site; other site 272562003153 NAD(P) binding site [chemical binding]; other site 272562003154 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 272562003155 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 272562003156 ADP binding site [chemical binding]; other site 272562003157 magnesium binding site [ion binding]; other site 272562003158 putative shikimate binding site; other site 272562003159 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 272562003160 trimer interface [polypeptide binding]; other site 272562003161 active site 272562003162 dimer interface [polypeptide binding]; other site 272562003163 Endodeoxyribonuclease RusA; Region: RusA; cl01885 272562003164 UGMP family protein; Validated; Region: PRK09604 272562003165 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 272562003166 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 272562003167 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 272562003168 putative active site [active] 272562003169 heme pocket [chemical binding]; other site 272562003170 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 272562003171 dimer interface [polypeptide binding]; other site 272562003172 phosphorylation site [posttranslational modification] 272562003173 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 272562003174 ATP binding site [chemical binding]; other site 272562003175 Mg2+ binding site [ion binding]; other site 272562003176 G-X-G motif; other site 272562003177 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 272562003178 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 272562003179 Walker A motif; other site 272562003180 ATP binding site [chemical binding]; other site 272562003181 Walker B motif; other site 272562003182 arginine finger; other site 272562003183 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 272562003184 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 272562003185 Walker A motif; other site 272562003186 ATP binding site [chemical binding]; other site 272562003187 Walker B motif; other site 272562003188 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 272562003189 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 272562003190 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562003191 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 272562003192 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 attaches...; Region: class_II_aaRS-like_core; cl00268 272562003193 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 272562003194 DHHA1 domain; Region: DHHA1; pfam02272 272562003195 Uncharacterised protein family UPF0047; Region: UPF0047; cl00439 272562003196 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 272562003197 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 272562003198 putative ATP binding site [chemical binding]; other site 272562003199 putative substrate interface [chemical binding]; other site 272562003200 Cache domain; Region: Cache_1; pfam02743 272562003201 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 272562003202 dimerization interface [polypeptide binding]; other site 272562003203 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272562003204 Cellulose binding domain; Region: CBM_3; cl03026 272562003205 Domain of unknown function; Region: DUF291; pfam03442 272562003206 Domain of unknown function; Region: DUF291; pfam03442 272562003207 Type I cohesin domain, interaction partner of dockerin; Region: Type_I_cohesin_like; cd08548 272562003208 dockerin binding interface; other site 272562003209 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 272562003210 Domain of unknown function; Region: DUF291; pfam03442 272562003211 Type I cohesin domain, interaction partner of dockerin; Region: Type_I_cohesin_like; cd08548 272562003212 dockerin binding interface; other site 272562003213 Domain of unknown function; Region: DUF291; pfam03442 272562003214 Type I cohesin domain, interaction partner of dockerin; Region: Type_I_cohesin_like; cd08548 272562003215 dockerin binding interface; other site 272562003216 Domain of unknown function; Region: DUF291; pfam03442 272562003217 Type I cohesin domain, interaction partner of dockerin; Region: Type_I_cohesin_like; cd08548 272562003218 dockerin binding interface; other site 272562003219 Domain of unknown function; Region: DUF291; pfam03442 272562003220 Type I cohesin domain, interaction partner of dockerin; Region: Type_I_cohesin_like; cd08548 272562003221 dockerin binding interface; other site 272562003222 Glycosyl hydrolase family 48; Region: Glyco_hydro_48; pfam02011 272562003223 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 272562003224 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 272562003225 Dockerin type I repeat; Region: Dockerin_1; pfam00404 272562003226 Dockerin type I repeat; Region: Dockerin_1; pfam00404 272562003227 endoglucanase; Region: PLN02420 272562003228 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 272562003229 Cellulose binding domain; Region: CBM_3; cl03026 272562003230 Dockerin type I repeat; Region: Dockerin_1; pfam00404 272562003231 Type I cohesin domain, interaction partner of dockerin; Region: Type_I_cohesin_like; cd08548 272562003232 dockerin binding interface; other site 272562003233 Glycoside hydrolase family 44; Region: Glyco_hydro_44; pfam12891 272562003234 endoglucanase; Region: PLN02420 272562003235 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 272562003236 Cellulose binding domain; Region: CBM_3; cl03026 272562003237 Dockerin type I repeat; Region: Dockerin_1; pfam00404 272562003238 Dockerin type I repeat; Region: Dockerin_1; pfam00404 272562003239 endoglucanase; Region: PLN02420 272562003240 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 272562003241 Dockerin type I repeat; Region: Dockerin_1; pfam00404 272562003242 Dockerin type I repeat; Region: Dockerin_1; pfam00404 272562003243 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 272562003244 Glycosyl hydrolase catalytic core; Region: Glyco_hydro_cc; pfam11790 272562003245 Dockerin type I repeat; Region: Dockerin_1; pfam00404 272562003246 VPS10 domain; Region: VPS10; smart00602 272562003247 Dockerin type I repeat; Region: Dockerin_1; pfam00404 272562003248 macrophage migration inhibitory factor-like protein; Provisional; Region: PTZ00450 272562003249 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 272562003250 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 272562003251 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 272562003252 metal binding site [ion binding]; metal-binding site 272562003253 dimer interface [polypeptide binding]; other site 272562003254 Proteins of 100 residues with WXG; Region: WXG100; cl02005 272562003255 Tropomyosin like; Region: Tropomyosin_1; pfam12718 272562003256 TPR repeat; Region: TPR_11; pfam13414 272562003257 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 272562003258 binding surface 272562003259 TPR motif; other site 272562003260 TPR repeat; Region: TPR_11; pfam13414 272562003261 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 272562003262 binding surface 272562003263 TPR motif; other site 272562003264 TPR repeat; Region: TPR_11; pfam13414 272562003265 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 272562003266 binding surface 272562003267 TPR motif; other site 272562003268 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 272562003269 binding surface 272562003270 TPR motif; other site 272562003271 Proteins of 100 residues with WXG; Region: WXG100; cl02005 272562003272 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 272562003273 S-adenosylmethionine binding site [chemical binding]; other site 272562003274 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 272562003275 cystathionine beta-lyase; Provisional; Region: PRK07671 272562003276 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 272562003277 homodimer interface [polypeptide binding]; other site 272562003278 substrate-cofactor binding pocket; other site 272562003279 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562003280 catalytic residue [active] 272562003281 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 272562003282 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 272562003283 dimer interface [polypeptide binding]; other site 272562003284 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562003285 catalytic residue [active] 272562003286 Uncharacterized small protein (DUF2292); Region: DUF2292; cl02371 272562003287 Helix-turn-helix domains; Region: HTH; cl00088 272562003288 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 272562003289 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 272562003290 phosphodiesterase; Provisional; Region: PRK12704 272562003291 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 272562003292 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 272562003293 dimer interface [polypeptide binding]; other site 272562003294 motif 1; other site 272562003295 active site 272562003296 motif 2; other site 272562003297 motif 3; other site 272562003298 ATP phosphoribosyltransferase; Region: HisG; cl15266 272562003299 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 272562003300 histidinol dehydrogenase; Region: hisD; TIGR00069 272562003301 NAD binding site [chemical binding]; other site 272562003302 dimerization interface [polypeptide binding]; other site 272562003303 product binding site; other site 272562003304 substrate binding site [chemical binding]; other site 272562003305 zinc binding site [ion binding]; other site 272562003306 catalytic residues [active] 272562003307 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 272562003308 putative active site pocket [active] 272562003309 4-fold oligomerization interface [polypeptide binding]; other site 272562003310 metal binding residues [ion binding]; metal-binding site 272562003311 3-fold/trimer interface [polypeptide binding]; other site 272562003312 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 272562003313 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 272562003314 putative active site [active] 272562003315 oxyanion strand; other site 272562003316 catalytic triad [active] 272562003317 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 272562003318 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 272562003319 catalytic residues [active] 272562003320 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 272562003321 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 272562003322 substrate binding site [chemical binding]; other site 272562003323 glutamase interaction surface [polypeptide binding]; other site 272562003324 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 272562003325 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 272562003326 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 272562003327 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 272562003328 TPP-binding site [chemical binding]; other site 272562003329 dimer interface [polypeptide binding]; other site 272562003330 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 272562003331 PYR/PP interface [polypeptide binding]; other site 272562003332 dimer interface [polypeptide binding]; other site 272562003333 TPP binding site [chemical binding]; other site 272562003334 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272562003335 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 272562003336 dimer interface [polypeptide binding]; other site 272562003337 ssDNA binding site [nucleotide binding]; other site 272562003338 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272562003339 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272562003340 Haemolysin-III related; Region: HlyIII; cl03831 272562003341 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 272562003342 Helix-turn-helix domains; Region: HTH; cl00088 272562003343 Predicted membrane protein [Function unknown]; Region: COG1971 272562003344 Domain of unknown function DUF; Region: DUF204; pfam02659 272562003345 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 272562003346 metal binding site 2 [ion binding]; metal-binding site 272562003347 putative DNA binding helix; other site 272562003348 metal binding site 1 [ion binding]; metal-binding site 272562003349 dimer interface [polypeptide binding]; other site 272562003350 structural Zn2+ binding site [ion binding]; other site 272562003351 Rhomboid family; Region: Rhomboid; cl11446 272562003352 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 272562003353 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 272562003354 Walker A motif; other site 272562003355 ATP binding site [chemical binding]; other site 272562003356 Walker B motif; other site 272562003357 arginine finger; other site 272562003358 Peptidase family M41; Region: Peptidase_M41; pfam01434 272562003359 YtxH-like protein; Region: YtxH; cl02079 272562003360 bifunctional HTH-domain containing protein/aminotransferase; Provisional; Region: PRK13355 272562003361 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 272562003362 non-specific DNA binding site [nucleotide binding]; other site 272562003363 salt bridge; other site 272562003364 sequence-specific DNA binding site [nucleotide binding]; other site 272562003365 Tetratricopeptide repeat; Region: TPR_12; pfam13424 272562003366 Tetratricopeptide repeat; Region: TPR_12; pfam13424 272562003367 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 272562003368 non-specific DNA binding site [nucleotide binding]; other site 272562003369 salt bridge; other site 272562003370 sequence-specific DNA binding site [nucleotide binding]; other site 272562003371 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 272562003372 Clp amino terminal domain; Region: Clp_N; pfam02861 272562003373 Clp amino terminal domain; Region: Clp_N; pfam02861 272562003374 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 272562003375 Walker A motif; other site 272562003376 ATP binding site [chemical binding]; other site 272562003377 Walker B motif; other site 272562003378 arginine finger; other site 272562003379 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 272562003380 Walker A motif; other site 272562003381 ATP binding site [chemical binding]; other site 272562003382 Walker B motif; other site 272562003383 arginine finger; other site 272562003384 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 272562003385 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 272562003386 NodB motif; other site 272562003387 active site 272562003388 catalytic site [active] 272562003389 Zn binding site [ion binding]; other site 272562003390 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 272562003391 catalytic triad [active] 272562003392 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 272562003393 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272562003394 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 272562003395 Bacitracin resistance protein BacA; Region: BacA; cl00858 272562003396 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 272562003397 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 272562003398 putative acyl-acceptor binding pocket; other site 272562003399 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 272562003400 Clostridium kluyveri Re-citrate synthase and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_Re_CS; cd07947 272562003401 active site 272562003402 catalytic residues [active] 272562003403 metal binding site [ion binding]; metal-binding site 272562003404 aconitate hydratase; Validated; Region: PRK07229 272562003405 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 272562003406 substrate binding site [chemical binding]; other site 272562003407 ligand binding site [chemical binding]; other site 272562003408 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 272562003409 substrate binding site [chemical binding]; other site 272562003410 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 272562003411 isocitrate dehydrogenase; Validated; Region: PRK06451 272562003412 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 272562003413 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 272562003414 ANP binding site [chemical binding]; other site 272562003415 Substrate Binding Site II [chemical binding]; other site 272562003416 Substrate Binding Site I [chemical binding]; other site 272562003417 argininosuccinate lyase; Provisional; Region: PRK00855 272562003418 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 272562003419 active sites [active] 272562003420 tetramer interface [polypeptide binding]; other site 272562003421 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_HprK; cl00270 272562003422 Domain of unknown function (DUF378); Region: DUF378; cl00943 272562003423 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 272562003424 Helix-turn-helix domains; Region: HTH; cl00088 272562003425 Predicted exonuclease [DNA replication, recombination, and repair]; Region: COG3359 272562003426 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 272562003427 active site 272562003428 substrate binding site [chemical binding]; other site 272562003429 FOG: CBS domain [General function prediction only]; Region: COG0517 272562003430 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 272562003431 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 272562003432 Pyruvate formate lyase 1; Region: PFL1; cd01678 272562003433 coenzyme A binding site [chemical binding]; other site 272562003434 active site 272562003435 catalytic residues [active] 272562003436 glycine loop; other site 272562003437 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 272562003438 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; cl15367 272562003439 PilZ domain; Region: PilZ; cl01260 272562003440 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 272562003441 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 272562003442 Walker A/P-loop; other site 272562003443 ATP binding site [chemical binding]; other site 272562003444 Q-loop/lid; other site 272562003445 ABC transporter signature motif; other site 272562003446 Walker B; other site 272562003447 D-loop; other site 272562003448 H-loop/switch region; other site 272562003449 NIL domain; Region: NIL; cl09633 272562003450 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 272562003451 dimer interface [polypeptide binding]; other site 272562003452 conserved gate region; other site 272562003453 ABC-ATPase subunit interface; other site 272562003454 NMT1-like family; Region: NMT1_2; cl15260 272562003455 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 272562003456 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 272562003457 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 272562003458 active site 272562003459 HIGH motif; other site 272562003460 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 272562003461 active site 272562003462 KMSKS motif; other site 272562003463 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 272562003464 proposed catalytic triad [active] 272562003465 conserved cys residue [active] 272562003466 Protein of unknown function, DUF488; Region: DUF488; cl01246 272562003467 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 272562003468 Nucleoside diphosphate kinases (NDP kinases, NDPks): NDP kinases, responsible for the synthesis of nucleoside triphosphates (NTPs), are involved in numerous regulatory processes associated with proliferation, development, and differentiation. They are...; Region: NDPk; cl00335 272562003469 multimer interface [polypeptide binding]; other site 272562003470 homoserine dehydrogenase; Provisional; Region: PRK06349 272562003471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562003472 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 272562003473 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 272562003474 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 272562003475 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, cyanobacteria; Region: Thr-synth_2; cd01560 272562003476 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562003477 catalytic residue [active] 272562003478 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 272562003479 aspartate aminotransferase; Provisional; Region: PRK07568 272562003480 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 272562003481 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562003482 homodimer interface [polypeptide binding]; other site 272562003483 catalytic residue [active] 272562003484 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 272562003485 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 272562003486 active site 272562003487 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 272562003488 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562003489 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 272562003490 nudix motif; other site 272562003491 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272562003492 Coenzyme A binding pocket [chemical binding]; other site 272562003493 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272562003494 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272562003495 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 272562003496 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272562003497 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 272562003498 active site 272562003499 metal binding site [ion binding]; metal-binding site 272562003500 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 272562003501 GtrA-like protein; Region: GtrA; cl00971 272562003502 cell division protein FtsA; Region: ftsA; TIGR01174 272562003503 Cell division protein FtsA; Region: FtsA; cl11496 272562003504 Cell division protein FtsA; Region: FtsA; cl11496 272562003505 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 272562003506 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 272562003507 metal binding site [ion binding]; metal-binding site 272562003508 dimer interface [polypeptide binding]; other site 272562003509 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 272562003510 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 272562003511 RNA binding surface [nucleotide binding]; other site 272562003512 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 272562003513 active site 272562003514 MatE; Region: MatE; cl10513 272562003515 stage V sporulation protein B; Region: spore_V_B; TIGR02900 272562003516 stage V sporulation protein B; Region: spore_V_B; TIGR02900 272562003517 MatE; Region: MatE; cl10513 272562003518 MatE; Region: MatE; cl10513 272562003519 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 272562003520 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; cl03005 272562003521 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 272562003522 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 272562003523 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 272562003524 FeS/SAM binding site; other site 272562003525 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 272562003526 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 272562003527 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 272562003528 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 272562003529 dimerization interface [polypeptide binding]; other site 272562003530 active site 272562003531 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562003532 FAD binding domain; Region: FAD_binding_2; pfam00890 272562003533 Quinolinate synthetase A protein; Region: NadA; cl00420 272562003534 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 272562003535 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562003536 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 272562003537 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272562003538 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272562003539 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 272562003540 FeoA domain; Region: FeoA; cl00838 272562003541 FeoA domain; Region: FeoA; cl00838 272562003542 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 272562003543 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 272562003544 G1 box; other site 272562003545 GTP/Mg2+ binding site [chemical binding]; other site 272562003546 Switch I region; other site 272562003547 G2 box; other site 272562003548 G3 box; other site 272562003549 Switch II region; other site 272562003550 G4 box; other site 272562003551 G5 box; other site 272562003552 Nucleoside recognition; Region: Gate; cl00486 272562003553 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 272562003554 Nucleoside recognition; Region: Gate; cl00486 272562003555 Helix-turn-helix domains; Region: HTH; cl00088 272562003556 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 272562003557 pyruvate kinase; Provisional; Region: PRK05826 272562003558 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 272562003559 domain interfaces; other site 272562003560 active site 272562003561 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 272562003562 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 272562003563 NodB motif; other site 272562003564 active site 272562003565 catalytic site [active] 272562003566 Zn binding site [ion binding]; other site 272562003567 Double zinc ribbon; Region: DZR; pfam12773 272562003568 Integral membrane protein TerC family; Region: TerC; cl10468 272562003569 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 272562003570 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 272562003571 active site 272562003572 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 272562003573 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 272562003574 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 272562003575 active site 272562003576 HIGH motif; other site 272562003577 KMSK motif region; other site 272562003578 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 272562003579 tRNA binding surface [nucleotide binding]; other site 272562003580 anticodon binding site; other site 272562003581 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 272562003582 non-specific DNA binding site [nucleotide binding]; other site 272562003583 salt bridge; other site 272562003584 sequence-specific DNA binding site [nucleotide binding]; other site 272562003585 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 272562003586 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 272562003587 active site 272562003588 FMN binding site [chemical binding]; other site 272562003589 substrate binding site [chemical binding]; other site 272562003590 putative catalytic residue [active] 272562003591 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562003592 EamA-like transporter family; Region: EamA; cl01037 272562003593 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 272562003594 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272562003595 Helix-turn-helix domains; Region: HTH; cl00088 272562003596 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 272562003597 dimerization interface [polypeptide binding]; other site 272562003598 vitamin B12-dependent ribonucleotide reductase; Validated; Region: PRK06556 272562003599 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 272562003600 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 272562003601 active site 272562003602 dimer interface [polypeptide binding]; other site 272562003603 effector binding site; other site 272562003604 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 272562003605 TSCPD domain; Region: TSCPD; cl14834 272562003606 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 272562003607 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 272562003608 trimer interface [polypeptide binding]; other site 272562003609 putative metal binding site [ion binding]; other site 272562003610 Protein of unknown function (DUF327); Region: DUF327; cl00753 272562003611 NAD synthetase; Reviewed; Region: nadE; PRK02628 272562003612 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 272562003613 multimer interface [polypeptide binding]; other site 272562003614 active site 272562003615 catalytic triad [active] 272562003616 protein interface 1 [polypeptide binding]; other site 272562003617 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 272562003618 homodimer interface [polypeptide binding]; other site 272562003619 NAD binding pocket [chemical binding]; other site 272562003620 ATP binding pocket [chemical binding]; other site 272562003621 Mg binding site [ion binding]; other site 272562003622 active-site loop [active] 272562003623 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 272562003624 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 272562003625 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 272562003626 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272562003627 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 272562003628 Arginase family; Region: Arginase; cl00306 272562003629 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 272562003630 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 272562003631 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 272562003632 binding surface 272562003633 TPR motif; other site 272562003634 TPR repeat; Region: TPR_11; pfam13414 272562003635 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 272562003636 binding surface 272562003637 TPR repeat; Region: TPR_11; pfam13414 272562003638 TPR motif; other site 272562003639 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 272562003640 binding surface 272562003641 TPR motif; other site 272562003642 TPR repeat; Region: TPR_11; pfam13414 272562003643 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 272562003644 binding surface 272562003645 TPR motif; other site 272562003646 TPR repeat; Region: TPR_11; pfam13414 272562003647 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 272562003648 binding surface 272562003649 TPR motif; other site 272562003650 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 272562003651 binding surface 272562003652 TPR repeat; Region: TPR_11; pfam13414 272562003653 TPR motif; other site 272562003654 Tetratricopeptide repeat; Region: TPR_12; pfam13424 272562003655 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 272562003656 binding surface 272562003657 TPR motif; other site 272562003658 TPR repeat; Region: TPR_11; pfam13414 272562003659 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 272562003660 binding surface 272562003661 TPR motif; other site 272562003662 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 272562003663 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 272562003664 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 272562003665 Radical SAM superfamily; Region: Radical_SAM; pfam04055 272562003666 FeS/SAM binding site; other site 272562003667 Protein of unknown function (DUF2000); Region: DUF2000; cl02074 272562003668 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 272562003669 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 272562003670 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 272562003671 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 272562003672 homotrimer interaction site [polypeptide binding]; other site 272562003673 putative active site [active] 272562003674 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 272562003675 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 272562003676 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 272562003677 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 272562003678 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 272562003679 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 272562003680 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 272562003681 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 272562003682 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 272562003683 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 272562003684 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 272562003685 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 272562003686 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 272562003687 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 272562003688 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 272562003689 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 272562003690 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 272562003691 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 272562003692 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 272562003693 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 272562003694 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 272562003695 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 272562003696 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 272562003697 YicI alpha-xylosidase is a glycosyl hydrolase family 31 (GH31) enzyme that catalyzes the release of an alpha-xylosyl residue from the non-reducing end of alpha-xyloside substrates such as alpha-xylosyl fluoride and isoprimeverose. YicI forms a...; Region: GH31_xylosidase_YicI; cd06593 272562003698 active site 272562003699 homotrimer interface [polypeptide binding]; other site 272562003700 catalytic site [active] 272562003701 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 272562003702 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 272562003703 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 272562003704 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 272562003705 putative active site [active] 272562003706 HPr kinase/phosphorylase; Provisional; Region: PRK05428 272562003707 DRTGG domain; Region: DRTGG; cl12147 272562003708 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 272562003709 Hpr binding site; other site 272562003710 active site 272562003711 homohexamer subunit interaction site [polypeptide binding]; other site 272562003712 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 272562003713 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 272562003714 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 272562003715 oligomer interface [polypeptide binding]; other site 272562003716 putative active site [active] 272562003717 metal binding site [ion binding]; metal-binding site 272562003718 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 272562003719 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 272562003720 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 272562003721 Cation efflux family; Region: Cation_efflux; cl00316 272562003722 Predicted membrane protein [Function unknown]; Region: COG2733 272562003723 Predicted membrane protein [Function unknown]; Region: COG2733 272562003724 DNA polymerase I; Provisional; Region: PRK05755 272562003725 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 272562003726 active site 272562003727 metal binding site 1 [ion binding]; metal-binding site 272562003728 putative 5' ssDNA interaction site; other site 272562003729 metal binding site 3; metal-binding site 272562003730 metal binding site 2 [ion binding]; metal-binding site 272562003731 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 272562003732 putative DNA binding site [nucleotide binding]; other site 272562003733 putative metal binding site [ion binding]; other site 272562003734 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 272562003735 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 272562003736 active site 272562003737 DNA binding site [nucleotide binding] 272562003738 catalytic site [active] 272562003739 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 272562003740 CoA-binding site [chemical binding]; other site 272562003741 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 272562003742 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272562003743 catalytic residue [active] 272562003744 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 272562003745 Spc7 kinetochore protein; Region: Spc7; smart00787 272562003746 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 272562003747 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 272562003748 active site 272562003749 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 272562003750 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272562003751 Haemolysin XhlA; Region: XhlA; pfam10779 272562003752 Phage integrase family; Region: Phage_integrase; pfam00589 272562003753 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 272562003754 DNA binding site [nucleotide binding] 272562003755 Int/Topo IB signature motif; other site 272562003756 active site 272562003757 catalytic residues [active] 272562003758 gp58-like protein; Region: Gp58; pfam07902 272562003759 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 272562003760 chromosome segregation protein; Provisional; Region: PRK03918 272562003761 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 272562003762 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 272562003763 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272562003764 catalytic residue [active] 272562003765 Copper resistance protein CopC; Region: CopC; cl01012 272562003766 large terminase protein; Provisional; Region: 17; PHA02533 272562003767 Terminase-like family; Region: Terminase_6; pfam03237 272562003768 RNA dependent RNA polymerase; Region: RdRP; pfam05183 272562003769 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 272562003770 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562003771 Family description; Region: UvrD_C_2; cl15862 272562003772 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 272562003773 Domain of unknown function (DUF4121); Region: DUF4121; pfam13497 272562003774 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 272562003775 Protein of unknown function DUF262; Region: DUF262; cl14890 272562003776 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 272562003777 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 272562003778 DNA binding site [nucleotide binding] 272562003779 Int/Topo IB signature motif; other site 272562003780 active site 272562003781 AAA domain; Region: AAA_24; pfam13479 272562003782 3D domain; Region: 3D; cl01439 272562003783 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 272562003784 Replicative DNA helicase [DNA replication, recombination, and repair]; Region: DnaB; COG0305 272562003785 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 272562003786 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 272562003787 nucleotide binding pocket [chemical binding]; other site 272562003788 K-X-D-G motif; other site 272562003789 catalytic site [active] 272562003790 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 272562003791 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 272562003792 Dimer interface [polypeptide binding]; other site 272562003793 BRCT sequence motif; other site 272562003794 hypothetical protein; Provisional; Region: PRK08624 272562003795 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 272562003796 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 272562003797 interdomain interaction site; other site 272562003798 active site 272562003799 metal binding site [ion binding]; metal-binding site 272562003800 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 272562003801 DHH family; Region: DHH; pfam01368 272562003802 DHHA1 domain; Region: DHHA1; pfam02272 272562003803 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 272562003804 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 272562003805 Active Sites [active] 272562003806 GIY-YIG domain of uncharacterized hypothetical protein found in phycodnavirus PBCV-1 DNA virus, T. thermophila Tlr element eoncoding protein Tlr8p, and similar proteins found in bacteria; Region: GIY-YIG_HE_Tlr8p_PBC-V_like; cd10443 272562003807 GIY-YIG motif/motif A; other site 272562003808 putative active site [active] 272562003809 putative metal binding site [ion binding]; other site 272562003810 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 272562003811 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 272562003812 ATP cone domain; Region: ATP-cone; pfam03477 272562003813 Class III ribonucleotide reductase; Region: RNR_III; cd01675 272562003814 effector binding site; other site 272562003815 active site 272562003816 Zn binding site [ion binding]; other site 272562003817 glycine loop; other site 272562003818 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 272562003819 trimer interface [polypeptide binding]; other site 272562003820 active site 272562003821 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 272562003822 non-specific DNA binding site [nucleotide binding]; other site 272562003823 salt bridge; other site 272562003824 sequence-specific DNA binding site [nucleotide binding]; other site 272562003825 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562003826 active site 272562003827 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272562003828 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 272562003829 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 272562003830 cofactor binding site; other site 272562003831 DNA binding site [nucleotide binding] 272562003832 substrate interaction site [chemical binding]; other site 272562003833 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 272562003834 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 272562003835 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 272562003836 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 272562003837 generic binding surface II; other site 272562003838 generic binding surface I; other site 272562003839 DNA-directed RNA polymerase specialized sigma subunit [Transcription]; Region: FliA; COG1191 272562003840 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272562003841 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272562003842 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 272562003843 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 272562003844 putative catalytic residues [active] 272562003845 catalytic nucleophile [active] 272562003846 Recombinase; Region: Recombinase; pfam07508 272562003847 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 272562003848 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562003849 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 272562003850 putative peptidoglycan binding site; other site 272562003851 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 272562003852 putative peptidoglycan binding site; other site 272562003853 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 272562003854 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 272562003855 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 272562003856 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 272562003857 active site 272562003858 phosphorylation site [posttranslational modification] 272562003859 intermolecular recognition site; other site 272562003860 dimerization interface [polypeptide binding]; other site 272562003861 hypothetical protein; Provisional; Region: PRK04435 272562003862 C-terminal ACT domain of a small (; 147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains; Region: ACT_PheB-BS; cd04888 272562003863 homoserine kinase; Provisional; Region: PRK01212 272562003864 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 272562003865 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 272562003866 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272562003867 Domain of unknown function (DUF4321); Region: DUF4321; pfam14209 272562003868 Maf-like protein; Region: Maf; pfam02545 272562003869 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 272562003870 active site 272562003871 dimer interface [polypeptide binding]; other site 272562003872 hypothetical protein; Reviewed; Region: PRK00024 272562003873 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 272562003874 MPN+ (JAMM) motif; other site 272562003875 Zinc-binding site [ion binding]; other site 272562003876 rod shape-determining protein MreB; Provisional; Region: PRK13927 272562003877 Cell division protein FtsA; Region: FtsA; cl11496 272562003878 rod shape-determining protein MreC; Region: MreC; pfam04085 272562003879 rod shape-determining protein MreD; Region: MreD; cl01087 272562003880 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 272562003881 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 272562003882 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 272562003883 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272562003884 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272562003885 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 272562003886 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 272562003887 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 272562003888 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272562003889 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272562003890 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 272562003891 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 272562003892 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 272562003893 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 272562003894 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272562003895 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272562003896 septum formation inhibitor; Reviewed; Region: minC; PRK00513 272562003897 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 272562003898 septum site-determining protein MinD; Region: minD_bact; TIGR01968 272562003899 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 272562003900 Switch I; other site 272562003901 Switch II; other site 272562003902 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 272562003903 Peptidase family M23; Region: Peptidase_M23; pfam01551 272562003904 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. SpoIVFB (sporulation protein, stage IV cell wall formation, F...; Region: S2P-M50_SpoIVFB; cd06161 272562003905 active site 272562003906 putative substrate binding region [chemical binding]; other site 272562003907 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 272562003908 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 272562003909 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 272562003910 FeS/SAM binding site; other site 272562003911 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 272562003912 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 272562003913 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 272562003914 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 272562003915 homodimer interface [polypeptide binding]; other site 272562003916 oligonucleotide binding site [chemical binding]; other site 272562003917 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 272562003918 Protein of unknown function (DUF464); Region: DUF464; cl01080 272562003919 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 272562003920 GTPase CgtA; Reviewed; Region: obgE; PRK12297 272562003921 GTP1/OBG; Region: GTP1_OBG; pfam01018 272562003922 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 272562003923 G1 box; other site 272562003924 GTP/Mg2+ binding site [chemical binding]; other site 272562003925 Switch I region; other site 272562003926 G2 box; other site 272562003927 G3 box; other site 272562003928 Switch II region; other site 272562003929 G4 box; other site 272562003930 G5 box; other site 272562003931 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 272562003932 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 272562003933 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 272562003934 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 272562003935 active site 272562003936 (T/H)XGH motif; other site 272562003937 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 272562003938 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272562003939 Zn2+ binding site [ion binding]; other site 272562003940 Mg2+ binding site [ion binding]; other site 272562003941 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 272562003942 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 272562003943 homotrimer interaction site [polypeptide binding]; other site 272562003944 putative active site [active] 272562003945 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 272562003946 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 272562003947 active site 272562003948 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl15297 272562003949 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 272562003950 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 272562003951 SLBB domain; Region: SLBB; pfam10531 272562003952 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 272562003953 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 272562003954 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 272562003955 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272562003956 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 272562003957 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 272562003958 Competence protein; Region: Competence; cl00471 272562003959 Competence protein; Region: Competence; cl00471 272562003960 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 272562003961 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 272562003962 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 272562003963 Germination protease; Region: Peptidase_A25; cl04057 272562003964 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 272562003965 stage II sporulation protein P; Region: spore_II_P; TIGR02867 272562003966 GTP-binding protein LepA; Provisional; Region: PRK05433 272562003967 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 272562003968 G1 box; other site 272562003969 putative GEF interaction site [polypeptide binding]; other site 272562003970 GTP/Mg2+ binding site [chemical binding]; other site 272562003971 Switch I region; other site 272562003972 G2 box; other site 272562003973 G3 box; other site 272562003974 Switch II region; other site 272562003975 G4 box; other site 272562003976 G5 box; other site 272562003977 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 272562003978 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 272562003979 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 272562003980 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 272562003981 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 272562003982 FeS/SAM binding site; other site 272562003983 HemN C-terminal domain; Region: HemN_C; pfam06969 272562003984 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 272562003985 Helix-turn-helix domains; Region: HTH; cl00088 272562003986 HrcA protein C terminal domain; Region: HrcA; pfam01628 272562003987 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 272562003988 dimer interface [polypeptide binding]; other site 272562003989 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 272562003990 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 272562003991 StbA protein; Region: StbA; pfam06406 272562003992 chaperone protein DnaJ; Provisional; Region: PRK14297 272562003993 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 272562003994 HSP70 interaction site [polypeptide binding]; other site 272562003995 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 272562003996 substrate binding site [polypeptide binding]; other site 272562003997 dimer interface [polypeptide binding]; other site 272562003998 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 272562003999 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 272562004000 S-adenosylmethionine binding site [chemical binding]; other site 272562004001 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 272562004002 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 272562004003 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 272562004004 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 272562004005 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 272562004006 FeS/SAM binding site; other site 272562004007 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 272562004008 nucleotide binding site/active site [active] 272562004009 HIT family signature motif; other site 272562004010 catalytic residue [active] 272562004011 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 272562004012 GatB domain; Region: GatB_Yqey; cl11497 272562004013 YabP family; Region: YabP; cl06766 272562004014 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 272562004015 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 272562004016 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 272562004017 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 272562004018 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272562004019 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 272562004020 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 272562004021 PAP2_like proteins, diacylglycerol_kinase like sub-family. In some prokaryotes, PAP2_like phosphatase domains appear fused to E. coli DAGK-like trans-membrane diacylglycerol kinase domains. The cellular function of these architectures remains to be...; Region: PAP2_diacylglycerolkinase; cd03383 272562004022 active site 272562004023 GTPase Era; Reviewed; Region: era; PRK00089 272562004024 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly...; Region: Era; cd04163 272562004025 G1 box; other site 272562004026 GTP/Mg2+ binding site [chemical binding]; other site 272562004027 Switch I region; other site 272562004028 G2 box; other site 272562004029 Switch II region; other site 272562004030 G3 box; other site 272562004031 G4 box; other site 272562004032 G5 box; other site 272562004033 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 272562004034 Recombination protein O N terminal; Region: RecO_N; pfam11967 272562004035 Recombination protein O C terminal; Region: RecO_C; pfam02565 272562004036 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 272562004037 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cl15691 272562004038 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 272562004039 DNA primase; Validated; Region: dnaG; PRK05667 272562004040 CHC2 zinc finger; Region: zf-CHC2; cl15369 272562004041 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 272562004042 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 272562004043 active site 272562004044 metal binding site [ion binding]; metal-binding site 272562004045 interdomain interaction site; other site 272562004046 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 272562004047 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 272562004048 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 272562004049 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 272562004050 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272562004051 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 272562004052 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 272562004053 DNA binding residues [nucleotide binding] 272562004054 Protein of unknown function (DUF2679); Region: DUF2679; pfam10882 272562004055 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 272562004056 Uncharacterized conserved protein [Function unknown]; Region: COG0327 272562004057 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 272562004058 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 272562004059 Putative zinc ribbon domain; Region: DUF164; pfam02591 272562004060 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 272562004061 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 272562004062 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 272562004063 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 272562004064 DNA binding site [nucleotide binding] 272562004065 Int/Topo IB signature motif; other site 272562004066 active site 272562004067 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 272562004068 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 272562004069 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272562004070 Ion channel; Region: Ion_trans_2; cl11596 272562004071 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 272562004072 amphipathic channel; other site 272562004073 Asn-Pro-Ala signature motifs; other site 272562004074 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 272562004075 glycerol kinase; Provisional; Region: glpK; PRK00047 272562004076 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 272562004077 N- and C-terminal domain interface [polypeptide binding]; other site 272562004078 active site 272562004079 MgATP binding site [chemical binding]; other site 272562004080 catalytic site [active] 272562004081 metal binding site [ion binding]; metal-binding site 272562004082 glycerol binding site [chemical binding]; other site 272562004083 homotetramer interface [polypeptide binding]; other site 272562004084 homodimer interface [polypeptide binding]; other site 272562004085 FBP binding site [chemical binding]; other site 272562004086 protein IIAGlc interface [polypeptide binding]; other site 272562004087 Predicted dehydrogenase [General function prediction only]; Region: COG0579 272562004088 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562004089 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 272562004090 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 272562004091 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 272562004092 Uncharacterized conserved protein [Function unknown]; Region: COG1284 272562004093 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272562004094 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 272562004095 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 272562004096 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 272562004097 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 272562004098 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 272562004099 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272562004100 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562004101 NAD(P) binding site [chemical binding]; other site 272562004102 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 272562004103 active site 272562004104 mannonate dehydratase; Provisional; Region: PRK03906 272562004105 mannonate dehydratase; Region: uxuA; TIGR00695 272562004106 Cupin domain; Region: Cupin_2; cl09118 272562004107 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272562004108 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272562004109 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272562004110 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 272562004111 Radical SAM superfamily; Region: Radical_SAM; pfam04055 272562004112 FeS/SAM binding site; other site 272562004113 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 272562004114 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 272562004115 CotJB protein; Region: CotJB; pfam12652 272562004116 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 272562004117 dimanganese center [ion binding]; other site 272562004118 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 272562004119 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 272562004120 putative substrate translocation pore; other site 272562004121 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272562004122 DNA-binding site [nucleotide binding]; DNA binding site 272562004123 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272562004124 Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AraR; cd01541 272562004125 putative dimerization interface [polypeptide binding]; other site 272562004126 putative ligand binding site [chemical binding]; other site 272562004127 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 272562004128 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 272562004129 intersubunit interface [polypeptide binding]; other site 272562004130 active site 272562004131 Zn2+ binding site [ion binding]; other site 272562004132 L-arabinose isomerase; Provisional; Region: PRK02929 272562004133 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 272562004134 hexamer (dimer of trimers) interface [polypeptide binding]; other site 272562004135 trimer interface [polypeptide binding]; other site 272562004136 substrate binding site [chemical binding]; other site 272562004137 Mn binding site [ion binding]; other site 272562004138 putative phosphoketolase; Provisional; Region: PRK05261 272562004139 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 272562004140 TPP-binding site; other site 272562004141 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 272562004142 XFP C-terminal domain; Region: XFP_C; pfam09363 272562004143 L-ribulokinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 272562004144 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 272562004145 putative N- and C-terminal domain interface [polypeptide binding]; other site 272562004146 putative active site [active] 272562004147 putative MgATP binding site [chemical binding]; other site 272562004148 catalytic site [active] 272562004149 metal binding site [ion binding]; metal-binding site 272562004150 putative carbohydrate binding site [chemical binding]; other site 272562004151 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 272562004152 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 272562004153 putative substrate translocation pore; other site 272562004154 L-arabinose isomerase; Provisional; Region: PRK02929 272562004155 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 272562004156 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 272562004157 trimer interface [polypeptide binding]; other site 272562004158 putative substrate binding site [chemical binding]; other site 272562004159 putative metal binding site [ion binding]; other site 272562004160 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 272562004161 active site 272562004162 intersubunit interactions; other site 272562004163 catalytic residue [active] 272562004164 transketolase; Reviewed; Region: PRK05899 272562004165 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 272562004166 TPP-binding site [chemical binding]; other site 272562004167 dimer interface [polypeptide binding]; other site 272562004168 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 272562004169 PYR/PP interface [polypeptide binding]; other site 272562004170 dimer interface [polypeptide binding]; other site 272562004171 TPP binding site [chemical binding]; other site 272562004172 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272562004173 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 272562004174 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 272562004175 active site 272562004176 catalytic residues [active] 272562004177 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cl00630 272562004178 putative active site [active] 272562004179 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 272562004180 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 272562004181 putative ligand binding site [chemical binding]; other site 272562004182 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 272562004183 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272562004184 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272562004185 dimer interface [polypeptide binding]; other site 272562004186 putative CheW interface [polypeptide binding]; other site 272562004187 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 272562004188 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 272562004189 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 272562004190 active site turn [active] 272562004191 phosphorylation site [posttranslational modification] 272562004192 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 272562004193 HPr interaction site; other site 272562004194 glycerol kinase (GK) interaction site [polypeptide binding]; other site 272562004195 active site 272562004196 phosphorylation site [posttranslational modification] 272562004197 transcriptional antiterminator BglG; Provisional; Region: PRK09772 272562004198 CAT RNA binding domain; Region: CAT_RBD; cl03904 272562004199 PRD domain; Region: PRD; cl15445 272562004200 PRD domain; Region: PRD; cl15445 272562004201 [FeFe] hydrogenase H-cluster radical SAM maturase HydG; Region: rSAM_HydG; TIGR03955 272562004202 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 272562004203 FeS/SAM binding site; other site 272562004204 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 272562004205 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 272562004206 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 272562004207 NodB motif; other site 272562004208 active site 272562004209 catalytic site [active] 272562004210 Zn binding site [ion binding]; other site 272562004211 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 272562004212 AAA domain; Region: AAA_26; pfam13500 272562004213 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562004214 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562004215 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 272562004216 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 272562004217 inhibitor-cofactor binding pocket; inhibition site 272562004218 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562004219 catalytic residue [active] 272562004220 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 272562004221 E-class dimer interface [polypeptide binding]; other site 272562004222 P-class dimer interface [polypeptide binding]; other site 272562004223 active site 272562004224 Cu2+ binding site [ion binding]; other site 272562004225 Zn2+ binding site [ion binding]; other site 272562004226 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 272562004227 PLD-like domain; Region: PLDc_2; pfam13091 272562004228 putative active site [active] 272562004229 catalytic site [active] 272562004230 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 272562004231 Cobalt transport protein; Region: CbiQ; cl00463 272562004232 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13639 272562004233 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 272562004234 Walker A/P-loop; other site 272562004235 ATP binding site [chemical binding]; other site 272562004236 Q-loop/lid; other site 272562004237 ABC transporter signature motif; other site 272562004238 Walker B; other site 272562004239 D-loop; other site 272562004240 H-loop/switch region; other site 272562004241 Cobalt ATP-binding cassette C terminal; Region: CoABC_C; pfam12370 272562004242 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 272562004243 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 272562004244 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562004245 homodimer interface [polypeptide binding]; other site 272562004246 catalytic residue [active] 272562004247 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 272562004248 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 272562004249 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 272562004250 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 272562004251 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 272562004252 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 272562004253 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 272562004254 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 272562004255 putative dimer interface [polypeptide binding]; other site 272562004256 active site pocket [active] 272562004257 putative cataytic base [active] 272562004258 Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]; Region: CbiK; COG4822 272562004259 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 272562004260 active site 272562004261 C-terminal domain interface [polypeptide binding]; other site 272562004262 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 272562004263 active site 272562004264 N-terminal domain interface [polypeptide binding]; other site 272562004265 cobyric acid synthase; Provisional; Region: PRK00784 272562004266 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562004267 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562004268 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 272562004269 catalytic triad [active] 272562004270 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 272562004271 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562004272 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 272562004273 catalytic triad [active] 272562004274 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 272562004275 Precorrin-8X methylmutase; Region: CbiC; pfam02570 272562004276 CbiD; Region: CbiD; cl00828 272562004277 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 272562004278 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 272562004279 S-adenosylmethionine binding site [chemical binding]; other site 272562004280 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 272562004281 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 272562004282 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 272562004283 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 272562004284 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 272562004285 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 272562004286 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 272562004287 homotrimer interface [polypeptide binding]; other site 272562004288 Walker A motif; other site 272562004289 GTP binding site [chemical binding]; other site 272562004290 Walker B motif; other site 272562004291 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 272562004292 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 272562004293 catalytic core [active] 272562004294 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272562004295 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 272562004296 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 272562004297 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272562004298 Cupin domain; Region: Cupin_2; cl09118 272562004299 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 272562004300 Clostridial hydrophobic W; Region: ChW; cl02763 272562004301 Clostridial hydrophobic W; Region: ChW; cl02763 272562004302 Clostridial hydrophobic W; Region: ChW; cl02763 272562004303 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 272562004304 Clostridial hydrophobic W; Region: ChW; cl02763 272562004305 Clostridial hydrophobic W; Region: ChW; cl02763 272562004306 Clostridial hydrophobic W; Region: ChW; cl02763 272562004307 Clostridial hydrophobic W; Region: ChW; cl02763 272562004308 Clostridial hydrophobic W; Region: ChW; cl02763 272562004309 AIR carboxylase; Region: AIRC; cl00310 272562004310 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 272562004311 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 272562004312 ATP binding site [chemical binding]; other site 272562004313 active site 272562004314 substrate binding site [chemical binding]; other site 272562004315 amidophosphoribosyltransferase; Provisional; Region: PRK05793 272562004316 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 272562004317 active site 272562004318 tetramer interface [polypeptide binding]; other site 272562004319 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272562004320 active site 272562004321 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 272562004322 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 272562004323 dimerization interface [polypeptide binding]; other site 272562004324 putative ATP binding site [chemical binding]; other site 272562004325 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 272562004326 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 272562004327 active site 272562004328 substrate binding site [chemical binding]; other site 272562004329 cosubstrate binding site; other site 272562004330 catalytic site [active] 272562004331 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 272562004332 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 272562004333 purine monophosphate binding site [chemical binding]; other site 272562004334 dimer interface [polypeptide binding]; other site 272562004335 putative catalytic residues [active] 272562004336 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 272562004337 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 272562004338 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 272562004339 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 272562004340 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 272562004341 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 272562004342 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 272562004343 active site 272562004344 Domain of unknown function DUF77; Region: DUF77; cl00307 272562004345 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 272562004346 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 272562004347 dimer interface [polypeptide binding]; other site 272562004348 conserved gate region; other site 272562004349 ABC-ATPase subunit interface; other site 272562004350 NMT1/THI5 like; Region: NMT1; pfam09084 272562004351 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 272562004352 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 272562004353 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 272562004354 Walker A/P-loop; other site 272562004355 ATP binding site [chemical binding]; other site 272562004356 Q-loop/lid; other site 272562004357 ABC transporter signature motif; other site 272562004358 Walker B; other site 272562004359 D-loop; other site 272562004360 H-loop/switch region; other site 272562004361 OpgC protein; Region: OpgC_C; cl00792 272562004362 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272562004363 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 272562004364 Helix-turn-helix domains; Region: HTH; cl00088 272562004365 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 272562004366 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 272562004367 CAT RNA binding domain; Region: CAT_RBD; cl03904 272562004368 transcriptional antiterminator BglG; Provisional; Region: PRK09772 272562004369 PRD domain; Region: PRD; cl15445 272562004370 PRD domain; Region: PRD; cl15445 272562004371 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 272562004372 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 272562004373 active site turn [active] 272562004374 phosphorylation site [posttranslational modification] 272562004375 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 272562004376 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 272562004377 HPr interaction site; other site 272562004378 glycerol kinase (GK) interaction site [polypeptide binding]; other site 272562004379 active site 272562004380 phosphorylation site [posttranslational modification] 272562004381 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 272562004382 Domain of unknown function (DUF4356); Region: DUF4356; pfam14266 272562004383 Domain of unknown function (DUF4356); Region: DUF4356; pfam14266 272562004384 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 272562004385 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 272562004386 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 272562004387 putative metal binding site [ion binding]; other site 272562004388 Uncharacterized protein involved in stress response [General function prediction only]; Region: COG4110 272562004389 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 272562004390 putative metal binding site [ion binding]; other site 272562004391 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 272562004392 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 272562004393 putative metal binding site [ion binding]; other site 272562004394 Integral membrane protein TerC family; Region: TerC; cl10468 272562004395 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 272562004396 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272562004397 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 272562004398 putative FMN binding site [chemical binding]; other site 272562004399 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 272562004400 putative dimer interface [polypeptide binding]; other site 272562004401 catalytic triad [active] 272562004402 hypothetical protein; Provisional; Region: PRK03881 272562004403 The N-terminal domain, an extradiol dioxygenase class III subunit B-like domain, of unknown proteins containing a C-terminal AMMECR1 domain; Region: ED_3B_N_AMMECR1; cd07951 272562004404 AMMECR1; Region: AMMECR1; cl00911 272562004405 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 272562004406 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 272562004407 FeS/SAM binding site; other site 272562004408 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 272562004409 Domain of unknown function DUF21; Region: DUF21; pfam01595 272562004410 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 272562004411 Transporter associated domain; Region: CorC_HlyC; cl08393 272562004412 short chain dehydrogenase; Provisional; Region: PRK06701 272562004413 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 272562004414 NAD binding site [chemical binding]; other site 272562004415 metal binding site [ion binding]; metal-binding site 272562004416 active site 272562004417 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272562004418 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 272562004419 trimer interface [polypeptide binding]; other site 272562004420 active site 272562004421 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 272562004422 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 272562004423 Helix-turn-helix domains; Region: HTH; cl00088 272562004424 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 272562004425 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 272562004426 inhibitor-cofactor binding pocket; inhibition site 272562004427 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562004428 catalytic residue [active] 272562004429 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 272562004430 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 272562004431 NAD binding site [chemical binding]; other site 272562004432 homodimer interface [polypeptide binding]; other site 272562004433 active site 272562004434 substrate binding site [chemical binding]; other site 272562004435 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 272562004436 Helix-turn-helix domains; Region: HTH; cl00088 272562004437 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 272562004438 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 272562004439 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272562004440 active site 272562004441 dimer interface [polypeptide binding]; other site 272562004442 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 272562004443 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 272562004444 catalytic residue [active] 272562004445 putative FPP diphosphate binding site; other site 272562004446 putative FPP binding hydrophobic cleft; other site 272562004447 dimer interface [polypeptide binding]; other site 272562004448 putative IPP diphosphate binding site; other site 272562004449 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 272562004450 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 272562004451 Sulfatase; Region: Sulfatase; cl10460 272562004452 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 272562004453 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 272562004454 S-adenosylmethionine binding site [chemical binding]; other site 272562004455 Bacterial protein of unknown function (DUF961); Region: DUF961; pfam06125 272562004456 VanZ like family; Region: VanZ; cl01971 272562004457 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 272562004458 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272562004459 putative substrate translocation pore; other site 272562004460 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 272562004461 Tet(M)-like subfamily. Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor...; Region: TetM_like; cd04168 272562004462 G1 box; other site 272562004463 putative GEF interaction site [polypeptide binding]; other site 272562004464 GTP/Mg2+ binding site [chemical binding]; other site 272562004465 Switch I region; other site 272562004466 G2 box; other site 272562004467 G3 box; other site 272562004468 Switch II region; other site 272562004469 G4 box; other site 272562004470 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 272562004471 EF-G_domain IV_RPP domain is a part of bacterial ribosomal protected proteins (RPP) family. RPPs such as tetracycline resistance proteins Tet(M) and Tet(O) mediate tetracycline resistance in both gram-positive and -negative species. Tetracyclines inhibit...; Region: Tet_like_IV; cd01684 272562004472 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 272562004473 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272562004474 Cupin domain; Region: Cupin_2; cl09118 272562004475 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272562004476 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272562004477 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272562004478 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 272562004479 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272562004480 putative substrate translocation pore; other site 272562004481 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 272562004482 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 272562004483 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 272562004484 ligand binding site [chemical binding]; other site 272562004485 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 272562004486 Histidine kinase; Region: HisKA_3; pfam07730 272562004487 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 272562004488 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272562004489 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 272562004490 active site 272562004491 phosphorylation site [posttranslational modification] 272562004492 intermolecular recognition site; other site 272562004493 dimerization interface [polypeptide binding]; other site 272562004494 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 272562004495 dimerization interface [polypeptide binding]; other site 272562004496 DNA binding residues [nucleotide binding] 272562004497 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272562004498 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 272562004499 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 272562004500 active pocket/dimerization site; other site 272562004501 active site 272562004502 phosphorylation site [posttranslational modification] 272562004503 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 272562004504 active site 272562004505 phosphorylation site [posttranslational modification] 272562004506 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 272562004507 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 272562004508 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 272562004509 substrate binding [chemical binding]; other site 272562004510 active site 272562004511 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 272562004512 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 272562004513 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 272562004514 sequence-specific DNA binding site [nucleotide binding]; other site 272562004515 salt bridge; other site 272562004516 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 272562004517 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 272562004518 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562004519 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 272562004520 Walker A/P-loop; other site 272562004521 ATP binding site [chemical binding]; other site 272562004522 Q-loop/lid; other site 272562004523 ABC transporter signature motif; other site 272562004524 Walker B; other site 272562004525 D-loop; other site 272562004526 H-loop/switch region; other site 272562004527 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 272562004528 Helix-turn-helix domains; Region: HTH; cl00088 272562004529 Uncharacterized conserved protein [Function unknown]; Region: COG2128 272562004530 Helix-turn-helix domains; Region: HTH; cl00088 272562004531 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 272562004532 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272562004533 Coenzyme A binding pocket [chemical binding]; other site 272562004534 Helix-turn-helix domains; Region: HTH; cl00088 272562004535 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 272562004536 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 272562004537 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272562004538 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 272562004539 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562004540 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 272562004541 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 272562004542 dimer interface [polypeptide binding]; other site 272562004543 conserved gate region; other site 272562004544 putative PBP binding loops; other site 272562004545 ABC-ATPase subunit interface; other site 272562004546 NMT1-like family; Region: NMT1_2; cl15260 272562004547 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 272562004548 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of...; Region: ABC_OpuCA_Osmoprotection; cd03295 272562004549 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 272562004550 Walker A/P-loop; other site 272562004551 ATP binding site [chemical binding]; other site 272562004552 Q-loop/lid; other site 272562004553 ABC transporter signature motif; other site 272562004554 Walker B; other site 272562004555 D-loop; other site 272562004556 H-loop/switch region; other site 272562004557 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 272562004558 dimer interface [polypeptide binding]; other site 272562004559 conserved gate region; other site 272562004560 putative PBP binding loops; other site 272562004561 ABC-ATPase subunit interface; other site 272562004562 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 272562004563 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 272562004564 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 272562004565 RNA binding surface [nucleotide binding]; other site 272562004566 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 272562004567 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 272562004568 homodimer interface [polypeptide binding]; other site 272562004569 substrate-cofactor binding pocket; other site 272562004570 catalytic residue [active] 272562004571 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 272562004572 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562004573 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 272562004574 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272562004575 Helix-turn-helix domains; Region: HTH; cl00088 272562004576 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 272562004577 dimerization interface [polypeptide binding]; other site 272562004578 Protein of unknown function (DUF554); Region: DUF554; cl00784 272562004579 Helix-turn-helix domains; Region: HTH; cl00088 272562004580 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 272562004581 putative FMN binding site [chemical binding]; other site 272562004582 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 272562004583 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 272562004584 DXD motif; other site 272562004585 PilZ domain; Region: PilZ; cl01260 272562004586 Uncharacterised protein family (UPF0180); Region: UPF0180; cl04214 272562004587 small acid-soluble spore protein Tlp; Provisional; Region: PRK03830; cl07951 272562004588 putative glycosyl transferase; Provisional; Region: PRK10073 272562004589 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 272562004590 active site 272562004591 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 272562004592 active site 272562004593 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562004594 Pirin-related protein [General function prediction only]; Region: COG1741 272562004595 Cupin domain; Region: Cupin_2; cl09118 272562004596 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 272562004597 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 272562004598 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 272562004599 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 272562004600 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 272562004601 folate binding site [chemical binding]; other site 272562004602 NADP+ binding site [chemical binding]; other site 272562004603 Predicted nucleotidyltransferase; Region: Nuc-transf; cl01417 272562004604 Predicted nucleotidyltransferase; Region: Nuc-transf; cl01417 272562004605 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 272562004606 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272562004607 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 272562004608 endonuclease III; Region: ENDO3c; smart00478 272562004609 minor groove reading motif; other site 272562004610 helix-hairpin-helix signature motif; other site 272562004611 substrate binding pocket [chemical binding]; other site 272562004612 active site 272562004613 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; cl15754 272562004614 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 272562004615 cofactor binding site; other site 272562004616 DNA binding site [nucleotide binding] 272562004617 substrate interaction site [chemical binding]; other site 272562004618 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; cl15754 272562004619 seryl-tRNA synthetase; Region: PLN02678 272562004620 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 272562004621 putative substrate translocation pore; other site 272562004622 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272562004623 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 272562004624 active site 272562004625 phosphorylation site [posttranslational modification] 272562004626 intermolecular recognition site; other site 272562004627 dimerization interface [polypeptide binding]; other site 272562004628 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 272562004629 DNA binding site [nucleotide binding] 272562004630 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 272562004631 dimerization interface [polypeptide binding]; other site 272562004632 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 272562004633 dimer interface [polypeptide binding]; other site 272562004634 phosphorylation site [posttranslational modification] 272562004635 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 272562004636 ATP binding site [chemical binding]; other site 272562004637 Mg2+ binding site [ion binding]; other site 272562004638 G-X-G motif; other site 272562004639 RNA polymerase sigma-70 factor, TIGR02952 family; Region: Sig70_famx2 272562004640 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272562004641 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; cl15358 272562004642 DNA binding residues [nucleotide binding] 272562004643 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 272562004644 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 272562004645 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 272562004646 ligand binding site [chemical binding]; other site 272562004647 flexible hinge region; other site 272562004648 Helix-turn-helix domains; Region: HTH; cl00088 272562004649 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 272562004650 sulfite reductase, subunit A; Region: sulfite_red_A; TIGR02910 272562004651 sulfite reductase, subunit B; Region: sulfite_red_B; TIGR02911 272562004652 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 272562004653 FAD binding pocket [chemical binding]; other site 272562004654 FAD binding motif [chemical binding]; other site 272562004655 phosphate binding motif [ion binding]; other site 272562004656 beta-alpha-beta structure motif; other site 272562004657 NAD binding pocket [chemical binding]; other site 272562004658 Iron coordination center [ion binding]; other site 272562004659 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 272562004660 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 272562004661 4Fe-4S binding domain; Region: Fer4; cl02805 272562004662 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272562004663 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 272562004664 active site 272562004665 phosphorylation site [posttranslational modification] 272562004666 intermolecular recognition site; other site 272562004667 dimerization interface [polypeptide binding]; other site 272562004668 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 272562004669 DNA binding site [nucleotide binding] 272562004670 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272562004671 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 272562004672 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 272562004673 ATP binding site [chemical binding]; other site 272562004674 Mg2+ binding site [ion binding]; other site 272562004675 G-X-G motif; other site 272562004676 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272562004677 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 272562004678 Walker A/P-loop; other site 272562004679 ATP binding site [chemical binding]; other site 272562004680 Q-loop/lid; other site 272562004681 ABC transporter signature motif; other site 272562004682 Walker B; other site 272562004683 D-loop; other site 272562004684 H-loop/switch region; other site 272562004685 FtsX-like permease family; Region: FtsX; cl15850 272562004686 FtsX-like permease family; Region: FtsX; cl15850 272562004687 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 272562004688 Protein of unknown function (DUF421); Region: DUF421; cl00990 272562004689 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 272562004690 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 272562004691 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 272562004692 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272562004693 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 272562004694 dimer interface [polypeptide binding]; other site 272562004695 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272562004696 NlpC/P60 family; Region: NLPC_P60; cl11438 272562004697 Spore germination protein; Region: Spore_permease; cl15802 272562004698 Glycosyl hydrolases family 43; Region: Glyco_hydro_43; pfam04616 272562004699 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 272562004700 active site 272562004701 galactoside permease; Reviewed; Region: lacY; PRK09528 272562004702 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 272562004703 putative substrate translocation pore; other site 272562004704 Uncharacterized conserved protein [Function unknown]; Region: COG2461 272562004705 Family of unknown function (DUF438); Region: DUF438; pfam04282 272562004706 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 272562004707 Clostridial hydrophobic W; Region: ChW; cl02763 272562004708 Clostridial hydrophobic W; Region: ChW; cl02763 272562004709 Clostridial hydrophobic W; Region: ChW; cl02763 272562004710 Clostridial hydrophobic W; Region: ChW; cl02763 272562004711 Clostridial hydrophobic W; Region: ChW; cl02763 272562004712 Clostridial hydrophobic W; Region: ChW; cl02763 272562004713 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272562004714 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 272562004715 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272562004716 FtsX-like permease family; Region: FtsX; cl15850 272562004717 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272562004718 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 272562004719 Walker A/P-loop; other site 272562004720 ATP binding site [chemical binding]; other site 272562004721 Q-loop/lid; other site 272562004722 ABC transporter signature motif; other site 272562004723 Walker B; other site 272562004724 D-loop; other site 272562004725 H-loop/switch region; other site 272562004726 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272562004727 Helix-turn-helix domains; Region: HTH; cl00088 272562004728 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 272562004729 EamA-like transporter family; Region: EamA; cl01037 272562004730 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 272562004731 EamA-like transporter family; Region: EamA; cl01037 272562004732 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl15791 272562004733 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 272562004734 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 272562004735 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 272562004736 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 272562004737 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562004738 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 272562004739 active site 272562004740 catalytic motif [active] 272562004741 Zn binding site [ion binding]; other site 272562004742 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 272562004743 intersubunit interface [polypeptide binding]; other site 272562004744 active site 272562004745 catalytic residue [active] 272562004746 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 272562004747 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 272562004748 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 272562004749 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 272562004750 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 272562004751 catalytic residues [active] 272562004752 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 272562004753 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562004754 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 272562004755 catalytic residues [active] 272562004756 dimer interface [polypeptide binding]; other site 272562004757 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 272562004758 SelR domain; Region: SelR; pfam01641 272562004759 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 272562004760 putative FMN binding site [chemical binding]; other site 272562004761 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272562004762 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 272562004763 active site 272562004764 phosphorylation site [posttranslational modification] 272562004765 intermolecular recognition site; other site 272562004766 dimerization interface [polypeptide binding]; other site 272562004767 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 272562004768 DNA binding site [nucleotide binding] 272562004769 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 272562004770 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 272562004771 dimer interface [polypeptide binding]; other site 272562004772 phosphorylation site [posttranslational modification] 272562004773 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 272562004774 ATP binding site [chemical binding]; other site 272562004775 Mg2+ binding site [ion binding]; other site 272562004776 G-X-G motif; other site 272562004777 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 272562004778 metal-binding site [ion binding] 272562004779 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 272562004780 Plastocyanin domain containing protein [General function prediction only]; Region: COG4633 272562004781 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272562004782 flagellin; Provisional; Region: PRK12804 272562004783 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 272562004784 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 272562004785 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 272562004786 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 272562004787 Interdomain contacts; other site 272562004788 Cytokine receptor motif; other site 272562004789 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 272562004790 active site 272562004791 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 272562004792 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272562004793 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272562004794 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272562004795 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562004796 Walker A/P-loop; other site 272562004797 ATP binding site [chemical binding]; other site 272562004798 Q-loop/lid; other site 272562004799 ABC transporter signature motif; other site 272562004800 Walker B; other site 272562004801 D-loop; other site 272562004802 H-loop/switch region; other site 272562004803 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 272562004804 non-specific DNA binding site [nucleotide binding]; other site 272562004805 salt bridge; other site 272562004806 sequence-specific DNA binding site [nucleotide binding]; other site 272562004807 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272562004808 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 272562004809 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 272562004810 DXD motif; other site 272562004811 PilZ domain; Region: PilZ; cl01260 272562004812 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 272562004813 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 272562004814 DHHW protein; Region: DHHW; pfam14286 272562004815 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272562004816 metal binding site [ion binding]; metal-binding site 272562004817 active site 272562004818 I-site; other site 272562004819 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272562004820 metal binding site [ion binding]; metal-binding site 272562004821 active site 272562004822 I-site; other site 272562004823 Transcriptional regulators [Transcription]; Region: MarR; COG1846 272562004824 Helix-turn-helix domains; Region: HTH; cl00088 272562004825 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 272562004826 catalytic residues [active] 272562004827 dimer interface [polypeptide binding]; other site 272562004828 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 272562004829 catalytic residues [active] 272562004830 dimer interface [polypeptide binding]; other site 272562004831 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 272562004832 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 272562004833 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 272562004834 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 272562004835 active site 272562004836 NAD binding site [chemical binding]; other site 272562004837 metal binding site [ion binding]; metal-binding site 272562004838 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; cl12126 272562004839 short chain dehydrogenase; Provisional; Region: PRK06701 272562004840 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 272562004841 NAD binding site [chemical binding]; other site 272562004842 metal binding site [ion binding]; metal-binding site 272562004843 active site 272562004844 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 272562004845 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 272562004846 non-specific DNA binding site [nucleotide binding]; other site 272562004847 salt bridge; other site 272562004848 sequence-specific DNA binding site [nucleotide binding]; other site 272562004849 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 272562004850 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 272562004851 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272562004852 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272562004853 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 272562004854 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 272562004855 active site 272562004856 phosphorylation site [posttranslational modification] 272562004857 intermolecular recognition site; other site 272562004858 dimerization interface [polypeptide binding]; other site 272562004859 LytTr DNA-binding domain; Region: LytTR; cl04498 272562004860 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 272562004861 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 272562004862 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562004863 active site 272562004864 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272562004865 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 272562004866 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 272562004867 putative substrate translocation pore; other site 272562004868 CrcB-like protein; Region: CRCB; cl09114 272562004869 CrcB-like protein; Region: CRCB; cl09114 272562004870 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272562004871 Helix-turn-helix domains; Region: HTH; cl00088 272562004872 The substrate binding domain of LysR-type transcriptional regulator MleR which required for malolactic fermentation, contains type 2 periplasmic binidning fold; Region: PBP2_MleR; cd08437 272562004873 putative dimerization interface [polypeptide binding]; other site 272562004874 malate dehydrogenase; Provisional; Region: PRK13529 272562004875 Malic enzyme, N-terminal domain; Region: malic; pfam00390 272562004876 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 272562004877 NAD(P) binding site [chemical binding]; other site 272562004878 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 272562004879 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 272562004880 transmembrane helices; other site 272562004881 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 272562004882 Predicted permease; Region: DUF318; cl00487 272562004883 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 272562004884 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 272562004885 metal binding site [ion binding]; metal-binding site 272562004886 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 272562004887 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 272562004888 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 272562004889 RNA binding surface [nucleotide binding]; other site 272562004890 INT_SG3, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 3, catalytic domain. The CD contains various predicted bacterial and phage integrase/recombinase sequences for which not much experimental characterization is available; Region: INT_SG3_C; cd01186 272562004891 Phage integrase family; Region: Phage_integrase; pfam00589 272562004892 Int/Topo IB signature motif; other site 272562004893 malate dehydrogenase; Provisional; Region: PRK13529 272562004894 Malic enzyme, N-terminal domain; Region: malic; pfam00390 272562004895 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 272562004896 NAD(P) binding site [chemical binding]; other site 272562004897 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 272562004898 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 272562004899 Cache domain; Region: Cache_1; pfam02743 272562004900 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 272562004901 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272562004902 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272562004903 dimer interface [polypeptide binding]; other site 272562004904 putative CheW interface [polypeptide binding]; other site 272562004905 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 272562004906 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 272562004907 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 272562004908 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 272562004909 active site 272562004910 dimer interfaces [polypeptide binding]; other site 272562004911 catalytic residues [active] 272562004912 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562004913 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 272562004914 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 272562004915 Protein of unknown function (DUF434); Region: DUF434; cl04460 272562004916 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 272562004917 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 272562004918 nucleotide binding site/active site [active] 272562004919 HIT family signature motif; other site 272562004920 catalytic residue [active] 272562004921 Transcription elongation factor Elf1 like; Region: Elf1; cl02038 272562004922 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 272562004923 putative efflux protein, MATE family; Region: matE; TIGR00797 272562004924 MatE; Region: MatE; cl10513 272562004925 MatE; Region: MatE; cl10513 272562004926 MatE; Region: MatE; cl10513 272562004927 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272562004928 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272562004929 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 272562004930 Walker A/P-loop; other site 272562004931 ATP binding site [chemical binding]; other site 272562004932 Q-loop/lid; other site 272562004933 ABC transporter signature motif; other site 272562004934 Walker B; other site 272562004935 D-loop; other site 272562004936 H-loop/switch region; other site 272562004937 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 272562004938 active site 272562004939 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 272562004940 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 272562004941 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 272562004942 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 272562004943 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 272562004944 FeS/SAM binding site; other site 272562004945 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 272562004946 dimer interface [polypeptide binding]; other site 272562004947 pyridoxal binding site [chemical binding]; other site 272562004948 ATP binding site [chemical binding]; other site 272562004949 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 272562004950 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 272562004951 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272562004952 Glycerol-1-phosphate_dehydrogenase and related proteins; Region: G1PDH_related; cd08549 272562004953 active site 272562004954 metal binding site [ion binding]; metal-binding site 272562004955 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 272562004956 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 272562004957 ATP binding site [chemical binding]; other site 272562004958 Mg2+ binding site [ion binding]; other site 272562004959 G-X-G motif; other site 272562004960 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 272562004961 anchoring element; other site 272562004962 dimer interface [polypeptide binding]; other site 272562004963 ATP binding site [chemical binding]; other site 272562004964 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 272562004965 active site 272562004966 metal binding site [ion binding]; metal-binding site 272562004967 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 272562004968 DNA topoisomerase IV subunit A; Provisional; Region: PRK13979 272562004969 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 272562004970 CAP-like domain; other site 272562004971 active site 272562004972 primary dimer interface [polypeptide binding]; other site 272562004973 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272562004974 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 272562004975 conserved cys residue [active] 272562004976 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 272562004977 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 272562004978 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 272562004979 biotin synthase; Provisional; Region: PRK07094 272562004980 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 272562004981 FeS/SAM binding site; other site 272562004982 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 272562004983 Endonuclease IV [DNA replication, recombination, and repair]; Region: Nfo; COG0648 272562004984 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 272562004985 AP (apurinic/apyrimidinic) site pocket; other site 272562004986 DNA interaction; other site 272562004987 Metal-binding active site; metal-binding site 272562004988 Uncharacterized conserved protein [Function unknown]; Region: COG1633 272562004989 Manganese catalase-like protein, ferritin-like diiron-binding domain; Region: Mn_catalase_like; cd07908 272562004990 dinuclear metal binding motif [ion binding]; other site 272562004991 flagellin; Provisional; Region: PRK12804 272562004992 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 272562004993 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 272562004994 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 272562004995 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4495 272562004996 LXG domain of WXG superfamily; Region: LXG; pfam04740 272562004997 NAD+--asparagine ADP-ribosyltransferase [Signal transduction mechanisms]; Region: COG5585 272562004998 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 272562004999 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 272562005000 Uncharacterized conserved protein [Function unknown]; Region: COG5620 272562005001 GAD-like domain; Region: GAD-like; pfam08887 272562005002 Domain of unknown function (DUF1851); Region: DUF1851; pfam08906 272562005003 NAD+--asparagine ADP-ribosyltransferase [Signal transduction mechanisms]; Region: COG5585 272562005004 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 272562005005 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 272562005006 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 272562005007 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 272562005008 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 272562005009 NAD+--asparagine ADP-ribosyltransferase [Signal transduction mechanisms]; Region: COG5585 272562005010 DNase/tRNase domain of colicin-like bacteriocin; Region: Colicin-DNase; cl15861 272562005011 Protein of unknown function (DUF2004); Region: DUF2004; pfam09406 272562005012 NAD+--asparagine ADP-ribosyltransferase [Signal transduction mechanisms]; Region: COG5585 272562005013 Domain of unknown function (DUF1851); Region: DUF1851; pfam08906 272562005014 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 272562005015 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 272562005016 G1 box; other site 272562005017 GTP/Mg2+ binding site [chemical binding]; other site 272562005018 Switch I region; other site 272562005019 G2 box; other site 272562005020 Switch II region; other site 272562005021 G3 box; other site 272562005022 G4 box; other site 272562005023 G5 box; other site 272562005024 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 272562005025 Aspartase; Region: Aspartase; cd01357 272562005026 active sites [active] 272562005027 tetramer interface [polypeptide binding]; other site 272562005028 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 272562005029 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 272562005030 Ligand binding site; other site 272562005031 Putative Catalytic site; other site 272562005032 DXD motif; other site 272562005033 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 272562005034 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 272562005035 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 272562005036 Peptidase M16C associated; Region: M16C_assoc; pfam08367 272562005037 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 272562005038 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 272562005039 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 272562005040 dimerization interface [polypeptide binding]; other site 272562005041 ATP binding site [chemical binding]; other site 272562005042 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 272562005043 dimerization interface [polypeptide binding]; other site 272562005044 ATP binding site [chemical binding]; other site 272562005045 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 272562005046 putative active site [active] 272562005047 catalytic triad [active] 272562005048 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 272562005049 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 272562005050 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 272562005051 PLD-like domain; Region: PLDc_2; pfam13091 272562005052 putative active site [active] 272562005053 catalytic site [active] 272562005054 Acetokinase family; Region: Acetate_kinase; cl01029 272562005055 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; cl00364 272562005056 Small acid-soluble spore protein H family; Region: SspH; cl06949 272562005057 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 272562005058 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 272562005059 homodimer interface [polypeptide binding]; other site 272562005060 active site pocket [active] 272562005061 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 272562005062 active site 272562005063 catalytic triad [active] 272562005064 dimer interface [polypeptide binding]; other site 272562005065 Predicted membrane protein [Function unknown]; Region: COG4905 272562005066 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 272562005067 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 272562005068 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272562005069 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272562005070 Helix-turn-helix domains; Region: HTH; cl00088 272562005071 Carbon starvation protein CstA; Region: CstA; cl00856 272562005072 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 272562005073 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 272562005074 active site 272562005075 phosphorylation site [posttranslational modification] 272562005076 intermolecular recognition site; other site 272562005077 dimerization interface [polypeptide binding]; other site 272562005078 LytTr DNA-binding domain; Region: LytTR; cl04498 272562005079 recombination factor protein RarA; Reviewed; Region: PRK13342 272562005080 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 272562005081 Walker A motif; other site 272562005082 ATP binding site [chemical binding]; other site 272562005083 Walker B motif; other site 272562005084 arginine finger; other site 272562005085 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 272562005086 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 272562005087 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562005088 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562005089 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562005090 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 272562005091 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 272562005092 active site 272562005093 dimer interface [polypeptide binding]; other site 272562005094 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 272562005095 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 272562005096 active site 272562005097 FMN binding site [chemical binding]; other site 272562005098 substrate binding site [chemical binding]; other site 272562005099 3Fe-4S cluster binding site [ion binding]; other site 272562005100 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 272562005101 domain interface; other site 272562005102 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 272562005103 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562005104 Helix-turn-helix domains; Region: HTH; cl00088 272562005105 Rrf2 family protein; Region: rrf2_super; TIGR00738 272562005106 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 272562005107 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 272562005108 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 272562005109 Domain of unknown function DUF20; Region: UPF0118; cl00465 272562005110 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 272562005111 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 272562005112 motif 1; other site 272562005113 active site 272562005114 motif 2; other site 272562005115 motif 3; other site 272562005116 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 272562005117 DHHA1 domain; Region: DHHA1; pfam02272 272562005118 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 272562005119 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 272562005120 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 272562005121 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 272562005122 metal binding site 2 [ion binding]; metal-binding site 272562005123 putative DNA binding helix; other site 272562005124 metal binding site 1 [ion binding]; metal-binding site 272562005125 dimer interface [polypeptide binding]; other site 272562005126 structural Zn2+ binding site [ion binding]; other site 272562005127 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 272562005128 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272562005129 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 272562005130 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 272562005131 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 272562005132 G1 box; other site 272562005133 putative GEF interaction site [polypeptide binding]; other site 272562005134 GTP/Mg2+ binding site [chemical binding]; other site 272562005135 Switch I region; other site 272562005136 G2 box; other site 272562005137 G3 box; other site 272562005138 Switch II region; other site 272562005139 G4 box; other site 272562005140 G5 box; other site 272562005141 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 272562005142 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 272562005143 YceG-like family; Region: YceG; pfam02618 272562005144 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 272562005145 dimerization interface [polypeptide binding]; other site 272562005146 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 272562005147 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 272562005148 S-adenosylmethionine binding site [chemical binding]; other site 272562005149 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 272562005150 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 272562005151 Peptidase family U32; Region: Peptidase_U32; cl03113 272562005152 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 272562005153 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272562005154 sporulation sigma factor SigK; Reviewed; Region: PRK05803 272562005155 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272562005156 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 272562005157 DNA binding residues [nucleotide binding] 272562005158 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 272562005159 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 272562005160 Walker A motif; other site 272562005161 ATP binding site [chemical binding]; other site 272562005162 Walker B motif; other site 272562005163 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 272562005164 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 272562005165 DXD motif; other site 272562005166 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 272562005167 Cell division protein FtsA; Region: FtsA; cl11496 272562005168 Cell division protein FtsA; Region: FtsA; cl11496 272562005169 cell division protein FtsZ; Validated; Region: PRK09330 272562005170 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 272562005171 nucleotide binding site [chemical binding]; other site 272562005172 SulA interaction site; other site 272562005173 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 272562005174 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 272562005175 sporulation sigma factor SigE; Reviewed; Region: PRK08301 272562005176 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272562005177 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 272562005178 DNA binding residues [nucleotide binding] 272562005179 sporulation sigma factor SigG; Reviewed; Region: PRK08215 272562005180 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272562005181 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 272562005182 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 272562005183 DNA binding residues [nucleotide binding] 272562005184 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 272562005185 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 272562005186 ATP cone domain; Region: ATP-cone; pfam03477 272562005187 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 272562005188 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 272562005189 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272562005190 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 272562005191 active site 272562005192 phosphorylation site [posttranslational modification] 272562005193 intermolecular recognition site; other site 272562005194 dimerization interface [polypeptide binding]; other site 272562005195 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 272562005196 DNA binding site [nucleotide binding] 272562005197 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 272562005198 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 272562005199 dimerization interface [polypeptide binding]; other site 272562005200 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 272562005201 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 272562005202 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 272562005203 dimer interface [polypeptide binding]; other site 272562005204 phosphorylation site [posttranslational modification] 272562005205 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 272562005206 ATP binding site [chemical binding]; other site 272562005207 Mg2+ binding site [ion binding]; other site 272562005208 G-X-G motif; other site 272562005209 Cache domain; Region: Cache_1; pfam02743 272562005210 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272562005211 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 272562005212 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 272562005213 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 272562005214 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 272562005215 dimer interface [polypeptide binding]; other site 272562005216 conserved gate region; other site 272562005217 putative PBP binding loops; other site 272562005218 ABC-ATPase subunit interface; other site 272562005219 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 272562005220 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 272562005221 dimer interface [polypeptide binding]; other site 272562005222 conserved gate region; other site 272562005223 putative PBP binding loops; other site 272562005224 ABC-ATPase subunit interface; other site 272562005225 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 272562005226 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 272562005227 Walker A/P-loop; other site 272562005228 ATP binding site [chemical binding]; other site 272562005229 Q-loop/lid; other site 272562005230 ABC transporter signature motif; other site 272562005231 Walker B; other site 272562005232 D-loop; other site 272562005233 H-loop/switch region; other site 272562005234 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 272562005235 PhoU domain; Region: PhoU; pfam01895 272562005236 PhoU domain; Region: PhoU; pfam01895 272562005237 Fe-S oxidoreductase, related to NifB/MoaA family [Energy production and conversion]; Region: COG1625 272562005238 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 272562005239 Protein of unknown function (DUF512); Region: DUF512; pfam04459 272562005240 GTP-binding protein Der; Reviewed; Region: PRK00093 272562005241 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA1; cd01894 272562005242 G1 box; other site 272562005243 GTP/Mg2+ binding site [chemical binding]; other site 272562005244 Switch I region; other site 272562005245 G2 box; other site 272562005246 Switch II region; other site 272562005247 G3 box; other site 272562005248 G4 box; other site 272562005249 G5 box; other site 272562005250 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA2; cd01895 272562005251 G1 box; other site 272562005252 GTP/Mg2+ binding site [chemical binding]; other site 272562005253 Switch I region; other site 272562005254 G2 box; other site 272562005255 G3 box; other site 272562005256 Switch II region; other site 272562005257 G4 box; other site 272562005258 G5 box; other site 272562005259 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 272562005260 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562005261 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 272562005262 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; cl09772 272562005263 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 272562005264 active site 272562005265 homotetramer interface [polypeptide binding]; other site 272562005266 homodimer interface [polypeptide binding]; other site 272562005267 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 272562005268 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 272562005269 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562005270 homodimer interface [polypeptide binding]; other site 272562005271 catalytic residue [active] 272562005272 hypothetical protein; Provisional; Region: PRK11820 272562005273 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 272562005274 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 272562005275 Domain of unknown function (DUF370); Region: DUF370; cl00898 272562005276 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 272562005277 catalytic site [active] 272562005278 G-X2-G-X-G-K; other site 272562005279 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 272562005280 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 272562005281 Flavoprotein; Region: Flavoprotein; cl08021 272562005282 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 272562005283 primosome assembly protein PriA; Validated; Region: PRK05580 272562005284 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 272562005285 ATP binding site [chemical binding]; other site 272562005286 putative Mg++ binding site [ion binding]; other site 272562005287 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562005288 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 272562005289 active site 272562005290 catalytic residues [active] 272562005291 metal binding site [ion binding]; metal-binding site 272562005292 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 272562005293 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 272562005294 putative active site [active] 272562005295 substrate binding site [chemical binding]; other site 272562005296 putative cosubstrate binding site; other site 272562005297 catalytic site [active] 272562005298 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 272562005299 substrate binding site [chemical binding]; other site 272562005300 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 272562005301 16S rRNA methyltransferase B; Provisional; Region: PRK14902 272562005302 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 272562005303 putative RNA binding site [nucleotide binding]; other site 272562005304 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; cl15754 272562005305 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 272562005306 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 272562005307 FeS/SAM binding site; other site 272562005308 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 272562005309 Protein phosphatase 2C; Region: PP2C; pfam00481 272562005310 active site 272562005311 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 272562005312 Catalytic domain of Protein Kinases; Region: PKc; cd00180 272562005313 active site 272562005314 ATP binding site [chemical binding]; other site 272562005315 substrate binding site [chemical binding]; other site 272562005316 activation loop (A-loop); other site 272562005317 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 272562005318 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 272562005319 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 272562005320 GTPase RsgA; Reviewed; Region: PRK00098 272562005321 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 272562005322 RNA binding site [nucleotide binding]; other site 272562005323 homodimer interface [polypeptide binding]; other site 272562005324 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 272562005325 GTPase/Zn-binding domain interface [polypeptide binding]; other site 272562005326 GTP/Mg2+ binding site [chemical binding]; other site 272562005327 G4 box; other site 272562005328 G5 box; other site 272562005329 G1 box; other site 272562005330 Switch I region; other site 272562005331 G2 box; other site 272562005332 G3 box; other site 272562005333 Switch II region; other site 272562005334 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 272562005335 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 272562005336 substrate binding site [chemical binding]; other site 272562005337 hexamer interface [polypeptide binding]; other site 272562005338 metal binding site [ion binding]; metal-binding site 272562005339 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 272562005340 Thiamine pyrophosphokinase; Region: TPK; cd07995 272562005341 active site 272562005342 dimerization interface [polypeptide binding]; other site 272562005343 thiamine binding site [chemical binding]; other site 272562005344 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 272562005345 Asp23 family; Region: Asp23; cl00574 272562005346 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 272562005347 DAK2 domain; Region: Dak2; cl03685 272562005348 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 272562005349 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 272562005350 ssDNA binding site; other site 272562005351 generic binding surface II; other site 272562005352 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 272562005353 ATP binding site [chemical binding]; other site 272562005354 putative Mg++ binding site [ion binding]; other site 272562005355 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 272562005356 nucleotide binding region [chemical binding]; other site 272562005357 ATP-binding site [chemical binding]; other site 272562005358 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 272562005359 S-adenosylmethionine binding site [chemical binding]; other site 272562005360 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 272562005361 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 272562005362 active site 272562005363 (T/H)XGH motif; other site 272562005364 phosphodiesterase; Provisional; Region: PRK12704 272562005365 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 272562005366 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; pfam05636 272562005367 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272562005368 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 272562005369 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 272562005370 Acetokinase family; Region: Acetate_kinase; cl01029 272562005371 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 272562005372 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 272562005373 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 272562005374 Phosphopantetheine attachment site; Region: PP-binding; cl09936 272562005375 ribonuclease III; Reviewed; Region: rnc; PRK00102 272562005376 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 272562005377 dimerization interface [polypeptide binding]; other site 272562005378 active site 272562005379 metal binding site [ion binding]; metal-binding site 272562005380 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 272562005381 dsRNA binding site [nucleotide binding]; other site 272562005382 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 272562005383 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 272562005384 FeS/SAM binding site; other site 272562005385 Stage V sporulation protein S (SpoVS); Region: SpoVS; cl01005 272562005386 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 272562005387 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 272562005388 Walker A/P-loop; other site 272562005389 ATP binding site [chemical binding]; other site 272562005390 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 272562005391 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 272562005392 ABC transporter signature motif; other site 272562005393 Walker B; other site 272562005394 D-loop; other site 272562005395 H-loop/switch region; other site 272562005396 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 272562005397 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 272562005398 P loop; other site 272562005399 GTP binding site [chemical binding]; other site 272562005400 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; cl15358 272562005401 signal recognition particle protein; Provisional; Region: PRK10867 272562005402 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 272562005403 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 272562005404 P loop; other site 272562005405 GTP binding site [chemical binding]; other site 272562005406 Signal peptide binding domain; Region: SRP_SPB; pfam02978 272562005407 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 272562005408 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 272562005409 hypothetical protein; Provisional; Region: PRK00468; cl00794 272562005410 RimM N-terminal domain; Region: RimM; pfam01782 272562005411 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 272562005412 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 272562005413 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 272562005414 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 272562005415 Catalytic site [active] 272562005416 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 272562005417 YlqF. Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The...; Region: YlqF; cd01856 272562005418 GTP/Mg2+ binding site [chemical binding]; other site 272562005419 G4 box; other site 272562005420 G5 box; other site 272562005421 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562005422 G1 box; other site 272562005423 G1 box; other site 272562005424 GTP/Mg2+ binding site [chemical binding]; other site 272562005425 Switch I region; other site 272562005426 G2 box; other site 272562005427 G2 box; other site 272562005428 Switch I region; other site 272562005429 G3 box; other site 272562005430 G3 box; other site 272562005431 Switch II region; other site 272562005432 Switch II region; other site 272562005433 G4 box; other site 272562005434 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 272562005435 RNA/DNA hybrid binding site [nucleotide binding]; other site 272562005436 active site 272562005437 Restriction endonuclease; Region: Mrr_cat; cl00516 272562005438 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 272562005439 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 272562005440 catalytic triad [active] 272562005441 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 272562005442 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 272562005443 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562005444 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 272562005445 RNA polymerase factor sigma-70; Validated; Region: PRK06811 272562005446 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272562005447 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 272562005448 DNA binding residues [nucleotide binding] 272562005449 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 272562005450 TraB family; Region: TraB; cl12050 272562005451 RNA polymerase sigma-I factor; Region: spore_sigI; TIGR02895 272562005452 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272562005453 Anti-sigma factor N-terminus; Region: RsgI_N; pfam12791 272562005454 Glycosyl hydrolase family 68, includes levansucrase, beta-fructofuranosidase and inulosucrase; Region: GH68; cd08997 272562005455 active site 272562005456 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 272562005457 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 272562005458 substrate binding [chemical binding]; other site 272562005459 active site 272562005460 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 272562005461 Glycosyl hydrolase family 68, includes levansucrase, beta-fructofuranosidase and inulosucrase; Region: GH68; cd08997 272562005462 active site 272562005463 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 272562005464 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272562005465 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 272562005466 nudix motif; other site 272562005467 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 272562005468 Isochorismatase family; Region: Isochorismatase; pfam00857 272562005469 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 272562005470 catalytic triad [active] 272562005471 conserved cis-peptide bond; other site 272562005472 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272562005473 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 272562005474 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 272562005475 active site 272562005476 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 272562005477 nicotinate (nicotinamide) nucleotide adenylyltransferase; Region: TIGR00482 272562005478 active site 272562005479 (T/H)XGH motif; other site 272562005480 NAD synthetase; Reviewed; Region: nadE; PRK02628 272562005481 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 272562005482 multimer interface [polypeptide binding]; other site 272562005483 active site 272562005484 catalytic triad [active] 272562005485 protein interface 1 [polypeptide binding]; other site 272562005486 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 272562005487 homodimer interface [polypeptide binding]; other site 272562005488 NAD binding pocket [chemical binding]; other site 272562005489 ATP binding pocket [chemical binding]; other site 272562005490 Mg binding site [ion binding]; other site 272562005491 active-site loop [active] 272562005492 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 272562005493 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 272562005494 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 272562005495 DNA topoisomerase I; Validated; Region: PRK05582 272562005496 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 272562005497 active site 272562005498 interdomain interaction site; other site 272562005499 putative metal-binding site [ion binding]; other site 272562005500 nucleotide binding site [chemical binding]; other site 272562005501 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 272562005502 domain I; other site 272562005503 DNA binding groove [nucleotide binding] 272562005504 phosphate binding site [ion binding]; other site 272562005505 domain II; other site 272562005506 domain III; other site 272562005507 nucleotide binding site [chemical binding]; other site 272562005508 catalytic site [active] 272562005509 domain IV; other site 272562005510 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 272562005511 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 272562005512 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 272562005513 transcriptional repressor CodY; Validated; Region: PRK04158 272562005514 CodY GAF-like domain; Region: CodY; pfam06018 272562005515 Helix-turn-helix domains; Region: HTH; cl00088 272562005516 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 272562005517 rRNA interaction site [nucleotide binding]; other site 272562005518 S8 interaction site; other site 272562005519 putative laminin-1 binding site; other site 272562005520 elongation factor Ts; Provisional; Region: tsf; PRK09377 272562005521 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 272562005522 Elongation factor TS; Region: EF_TS; pfam00889 272562005523 Elongation factor TS; Region: EF_TS; pfam00889 272562005524 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 272562005525 putative nucleotide binding site [chemical binding]; other site 272562005526 uridine monophosphate binding site [chemical binding]; other site 272562005527 homohexameric interface [polypeptide binding]; other site 272562005528 ribosome recycling factor; Reviewed; Region: frr; PRK00083 272562005529 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 272562005530 hinge region; other site 272562005531 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 272562005532 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 272562005533 catalytic residue [active] 272562005534 putative FPP diphosphate binding site; other site 272562005535 putative FPP binding hydrophobic cleft; other site 272562005536 dimer interface [polypeptide binding]; other site 272562005537 putative IPP diphosphate binding site; other site 272562005538 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 272562005539 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 272562005540 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 272562005541 Catalytic site [active] 272562005542 Domain of unknown function DUF20; Region: UPF0118; cl00465 272562005543 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 272562005544 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 272562005545 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 272562005546 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 272562005547 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 272562005548 active site 272562005549 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 272562005550 protein binding site [polypeptide binding]; other site 272562005551 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 272562005552 putative substrate binding region [chemical binding]; other site 272562005553 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 272562005554 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 272562005555 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 272562005556 ribosome maturation protein RimP; Reviewed; Region: PRK00092 272562005557 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 272562005558 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 272562005559 Sm1 motif; other site 272562005560 D3 - B interaction site; other site 272562005561 D1 - D2 interaction site; other site 272562005562 Hfq - Hfq interaction site; other site 272562005563 RNA binding pocket [nucleotide binding]; other site 272562005564 Sm2 motif; other site 272562005565 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 272562005566 NusA N-terminal domain; Region: NusA_N; pfam08529 272562005567 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 272562005568 RNA binding site [nucleotide binding]; other site 272562005569 homodimer interface [polypeptide binding]; other site 272562005570 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 272562005571 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 272562005572 G-X-X-G motif; other site 272562005573 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 272562005574 putative RNA binding cleft [nucleotide binding]; other site 272562005575 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 272562005576 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 272562005577 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 272562005578 translation initiation factor IF-2; Region: IF-2; TIGR00487 272562005579 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases; Region: IF2_eIF5B; cd01887 272562005580 G1 box; other site 272562005581 putative GEF interaction site [polypeptide binding]; other site 272562005582 GTP/Mg2+ binding site [chemical binding]; other site 272562005583 Switch I region; other site 272562005584 G2 box; other site 272562005585 G3 box; other site 272562005586 Switch II region; other site 272562005587 G4 box; other site 272562005588 G5 box; other site 272562005589 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 272562005590 Translation-initiation factor 2; Region: IF-2; pfam11987 272562005591 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 272562005592 Ribosome-binding factor A; Region: RBFA; cl00542 272562005593 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 272562005594 DHH family; Region: DHH; pfam01368 272562005595 DHHA1 domain; Region: DHHA1; pfam02272 272562005596 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 272562005597 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 272562005598 RNA binding site [nucleotide binding]; other site 272562005599 active site 272562005600 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 272562005601 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 272562005602 active site 272562005603 Riboflavin kinase; Region: Flavokinase; cl03312 272562005604 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 272562005605 16S/18S rRNA binding site [nucleotide binding]; other site 272562005606 S13e-L30e interaction site [polypeptide binding]; other site 272562005607 25S rRNA binding site [nucleotide binding]; other site 272562005608 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 272562005609 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 272562005610 RNase E interface [polypeptide binding]; other site 272562005611 trimer interface [polypeptide binding]; other site 272562005612 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 272562005613 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 272562005614 RNase E interface [polypeptide binding]; other site 272562005615 trimer interface [polypeptide binding]; other site 272562005616 active site 272562005617 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 272562005618 putative nucleic acid binding region [nucleotide binding]; other site 272562005619 G-X-X-G motif; other site 272562005620 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 272562005621 RNA binding site [nucleotide binding]; other site 272562005622 domain interface; other site 272562005623 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 272562005624 aspartate kinase I; Reviewed; Region: PRK08210 272562005625 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 272562005626 nucleotide binding site [chemical binding]; other site 272562005627 substrate binding site [chemical binding]; other site 272562005628 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 272562005629 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_2; cd04937 272562005630 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl14780 272562005631 active site 272562005632 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 272562005633 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562005634 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 272562005635 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 272562005636 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 272562005637 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 272562005638 FeS/SAM binding site; other site 272562005639 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 272562005640 recombinase A; Provisional; Region: recA; PRK09354 272562005641 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 272562005642 hexamer interface [polypeptide binding]; other site 272562005643 Walker A motif; other site 272562005644 ATP binding site [chemical binding]; other site 272562005645 Walker B motif; other site 272562005646 phosphodiesterase; Provisional; Region: PRK12704 272562005647 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272562005648 Zn2+ binding site [ion binding]; other site 272562005649 Mg2+ binding site [ion binding]; other site 272562005650 Stage V sporulation protein S (SpoVS); Region: SpoVS; cl01005 272562005651 UbiA prenyltransferase family; Region: UbiA; cl00337 272562005652 aspartate aminotransferase; Provisional; Region: PRK05764 272562005653 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 272562005654 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562005655 homodimer interface [polypeptide binding]; other site 272562005656 catalytic residue [active] 272562005657 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 272562005658 regulatory protein interface [polypeptide binding]; other site 272562005659 active site 272562005660 regulatory phosphorylation site [posttranslational modification]; other site 272562005661 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 272562005662 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 272562005663 tetramer interface [polypeptide binding]; other site 272562005664 active site 272562005665 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272562005666 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 272562005667 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272562005668 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 272562005669 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 272562005670 Clp amino terminal domain; Region: Clp_N; pfam02861 272562005671 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 272562005672 Walker A motif; other site 272562005673 ATP binding site [chemical binding]; other site 272562005674 Walker B motif; other site 272562005675 arginine finger; other site 272562005676 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 272562005677 Walker A motif; other site 272562005678 ATP binding site [chemical binding]; other site 272562005679 Walker B motif; other site 272562005680 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 272562005681 Homoserine O-succinyltransferase; Region: HTS; pfam04204 272562005682 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 272562005683 proposed active site lysine [active] 272562005684 conserved cys residue [active] 272562005685 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 272562005686 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 272562005687 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 272562005688 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 272562005689 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 272562005690 LexA repressor; Validated; Region: PRK00215 272562005691 Helix-turn-helix domains; Region: HTH; cl00088 272562005692 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 272562005693 Catalytic site [active] 272562005694 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 272562005695 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 272562005696 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 272562005697 Sm1 motif; other site 272562005698 intra - hexamer interaction site; other site 272562005699 inter - hexamer interaction site [polypeptide binding]; other site 272562005700 nucleotide binding pocket [chemical binding]; other site 272562005701 Sm2 motif; other site 272562005702 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 272562005703 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562005704 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 272562005705 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 272562005706 ATP binding site [chemical binding]; other site 272562005707 Mg2+ binding site [ion binding]; other site 272562005708 G-X-G motif; other site 272562005709 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 272562005710 ATP binding site [chemical binding]; other site 272562005711 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 272562005712 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 272562005713 MutS domain I; Region: MutS_I; pfam01624 272562005714 MutS domain II; Region: MutS_II; pfam05188 272562005715 MutS family domain IV; Region: MutS_IV; pfam05190 272562005716 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 272562005717 Walker A/P-loop; other site 272562005718 ATP binding site [chemical binding]; other site 272562005719 Q-loop/lid; other site 272562005720 ABC transporter signature motif; other site 272562005721 Walker B; other site 272562005722 D-loop; other site 272562005723 H-loop/switch region; other site 272562005724 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 272562005725 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 272562005726 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 272562005727 FeS/SAM binding site; other site 272562005728 TRAM domain; Region: TRAM; cl01282 272562005729 mycothiol synthase; Region: mycothiol_MshD; TIGR03448 272562005730 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272562005731 Coenzyme A binding pocket [chemical binding]; other site 272562005732 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cl15691 272562005733 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 272562005734 active site 272562005735 ATP binding site [chemical binding]; other site 272562005736 substrate binding site [chemical binding]; other site 272562005737 Holin family; Region: Phage_holin_4; cl01989 272562005738 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 272562005739 non-specific DNA binding site [nucleotide binding]; other site 272562005740 salt bridge; other site 272562005741 sequence-specific DNA binding site [nucleotide binding]; other site 272562005742 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 272562005743 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 272562005744 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 272562005745 ligand binding site [chemical binding]; other site 272562005746 flagellar motor protein MotA; Validated; Region: PRK08124 272562005747 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 272562005748 LytB protein; Region: LYTB; cl00507 272562005749 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 272562005750 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 272562005751 RNA binding site [nucleotide binding]; other site 272562005752 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 272562005753 RNA binding site [nucleotide binding]; other site 272562005754 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 272562005755 RNA binding site [nucleotide binding]; other site 272562005756 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_hs4; cd05692 272562005757 RNA binding site [nucleotide binding]; other site 272562005758 cytidylate kinase; Provisional; Region: cmk; PRK00023 272562005759 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 272562005760 CMP-binding site; other site 272562005761 The sites determining sugar specificity; other site 272562005762 Predicted flavoproteins [General function prediction only]; Region: COG2081 272562005763 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562005764 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 272562005765 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 272562005766 putative active site [active] 272562005767 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 272562005768 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 272562005769 RNA binding surface [nucleotide binding]; other site 272562005770 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 272562005771 active site 272562005772 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 272562005773 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 272562005774 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 272562005775 dimer interface [polypeptide binding]; other site 272562005776 ADP-ribose binding site [chemical binding]; other site 272562005777 active site 272562005778 nudix motif; other site 272562005779 metal binding site [ion binding]; metal-binding site 272562005780 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 272562005781 Bacterial RNase HI containing a hybrid binding domain (HBD) at the N-terminus; Region: RNase_HI_bacteria_HBD; cd09277 272562005782 RNA/DNA hybrid binding site [nucleotide binding]; other site 272562005783 active site 272562005784 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3864 272562005785 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 272562005786 MoxR-like ATPases [General function prediction only]; Region: COG0714 272562005787 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 272562005788 Walker A motif; other site 272562005789 ATP binding site [chemical binding]; other site 272562005790 Walker B motif; other site 272562005791 hypothetical protein; Provisional; Region: PRK05802 272562005792 FAD/NAD binding domain (electron transfer subunit) of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate...; Region: DHOD_e_trans_like; cd06192 272562005793 FAD binding pocket [chemical binding]; other site 272562005794 FAD binding motif [chemical binding]; other site 272562005795 phosphate binding motif [ion binding]; other site 272562005796 beta-alpha-beta structure motif; other site 272562005797 NAD binding pocket [chemical binding]; other site 272562005798 Iron coordination center [ion binding]; other site 272562005799 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 272562005800 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 272562005801 catalytic residues [active] 272562005802 catalytic nucleophile [active] 272562005803 Presynaptic Site I dimer interface [polypeptide binding]; other site 272562005804 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 272562005805 Synaptic Flat tetramer interface [polypeptide binding]; other site 272562005806 Synaptic Site I dimer interface [polypeptide binding]; other site 272562005807 DNA binding site [nucleotide binding] 272562005808 Recombinase; Region: Recombinase; pfam07508 272562005809 Glucose inhibited division protein A; Region: GIDA; pfam01134 272562005810 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 272562005811 non-specific DNA binding site [nucleotide binding]; other site 272562005812 salt bridge; other site 272562005813 sequence-specific DNA binding site [nucleotide binding]; other site 272562005814 Telomeric repeat-binding factor 2; Region: TRF2; pfam11611 272562005815 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272562005816 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 272562005817 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562005818 Replication protein; Region: Rep_1; cl02412 272562005819 Lyc muramidase is an autolytic lysozyme (autolysin) from Clostridium acetobutylicum encoded by the lyc gene. Lyc has a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan...; Region: GH25_Lyc-like; cd06525 272562005820 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 272562005821 active site 272562005822 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272562005823 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272562005824 Haemolysin XhlA; Region: XhlA; pfam10779 272562005825 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 272562005826 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 272562005827 Protein of unknown function (DUF1617); Region: DUF1617; pfam07761 272562005828 Phage-related tail protein [Function unknown]; Region: COG5283 272562005829 Phage-related tail protein [Function unknown]; Region: COG5283 272562005830 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 272562005831 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272562005832 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 272562005833 Copper resistance protein CopC; Region: CopC; cl01012 272562005834 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 272562005835 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 272562005836 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 272562005837 oligomerization interface [polypeptide binding]; other site 272562005838 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 272562005839 Phage capsid family; Region: Phage_capsid; pfam05065 272562005840 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 272562005841 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 272562005842 oligomer interface [polypeptide binding]; other site 272562005843 active site residues [active] 272562005844 Phage-related protein [Function unknown]; Region: COG4695; cl01923 272562005845 Phage portal protein; Region: Phage_portal; pfam04860 272562005846 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 272562005847 Phage Terminase; Region: Terminase_1; pfam03354 272562005848 Phage terminase, small subunit; Region: Terminase_4; cl01525 272562005849 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 272562005850 Mu-like prophage protein Com; Region: Mu-like_Com; cl11540 272562005851 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 272562005852 putative active site [active] 272562005853 catalytic site [active] 272562005854 putative substrate binding site [chemical binding]; other site 272562005855 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 272562005856 DNA directed RNA polymerase, 7 kDa subunit; Region: DNA_RNApol_7kD; cl00874 272562005857 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 272562005858 dimer interface [polypeptide binding]; other site 272562005859 ssDNA binding site [nucleotide binding]; other site 272562005860 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272562005861 Restriction alleviation protein Lar; Region: Lar_restr_allev; cl08047 272562005862 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 272562005863 hypothetical protein; Validated; Region: PRK08116 272562005864 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 272562005865 Walker A motif; other site 272562005866 ATP binding site [chemical binding]; other site 272562005867 Walker B motif; other site 272562005868 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; cl09889 272562005869 Coronavirus S2 glycoprotein; Region: Corona_S2; pfam01601 272562005870 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; cl01936 272562005871 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272562005872 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 272562005873 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4306 272562005874 AntA/AntB antirepressor; Region: AntA; cl01430 272562005875 Helix-turn-helix domains; Region: HTH; cl00088 272562005876 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 272562005877 non-specific DNA binding site [nucleotide binding]; other site 272562005878 salt bridge; other site 272562005879 sequence-specific DNA binding site [nucleotide binding]; other site 272562005880 Helix-turn-helix domains; Region: HTH; cl00088 272562005881 Helix-turn-helix domains; Region: HTH; cl00088 272562005882 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 272562005883 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 272562005884 catalytic residues [active] 272562005885 catalytic nucleophile [active] 272562005886 Presynaptic Site I dimer interface [polypeptide binding]; other site 272562005887 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 272562005888 Synaptic Flat tetramer interface [polypeptide binding]; other site 272562005889 Synaptic Site I dimer interface [polypeptide binding]; other site 272562005890 DNA binding site [nucleotide binding] 272562005891 Recombinase; Region: Recombinase; pfam07508 272562005892 Glucose inhibited division protein A; Region: GIDA; pfam01134 272562005893 Membrane protein of unknown function; Region: DUF360; cl00850 272562005894 Domain of unknown function (DUF1737); Region: DUF1737; cl10503 272562005895 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 272562005896 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 272562005897 catalytic residues [active] 272562005898 catalytic nucleophile [active] 272562005899 Recombinase; Region: Recombinase; pfam07508 272562005900 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 272562005901 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 272562005902 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 272562005903 active site 272562005904 catalytic tetrad [active] 272562005905 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 272562005906 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 272562005907 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 272562005908 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272562005909 putative active site [active] 272562005910 putative metal binding site [ion binding]; other site 272562005911 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 272562005912 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272562005913 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 272562005914 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 272562005915 active site 272562005916 metal binding site [ion binding]; metal-binding site 272562005917 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 272562005918 Ribosomal protein S1 [Translation, ribosomal structure and biogenesis]; Region: RpsA; COG0539 272562005919 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 272562005920 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 272562005921 RNA binding site [nucleotide binding]; other site 272562005922 transcription elongation factor GreA; Region: greA; TIGR01462 272562005923 domain; Region: GreA_GreB_N; pfam03449 272562005924 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 272562005925 pectinesterase/pectinesterase inhibitor; Region: PLN02301 272562005926 Protein of unknown function (DUF3737); Region: DUF3737; pfam12541 272562005927 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 272562005928 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 272562005929 Walker A motif; other site 272562005930 ATP binding site [chemical binding]; other site 272562005931 Walker B motif; other site 272562005932 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 272562005933 SAF domain; Region: SAF; cl00555 272562005934 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 272562005935 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 272562005936 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562005937 Walker A motif; other site 272562005938 ATP binding site [chemical binding]; other site 272562005939 Walker B motif; other site 272562005940 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 272562005941 EamA-like transporter family; Region: EamA; cl01037 272562005942 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 272562005943 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 272562005944 putative ligand binding residues [chemical binding]; other site 272562005945 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 272562005946 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 272562005947 Walker A/P-loop; other site 272562005948 ATP binding site [chemical binding]; other site 272562005949 Q-loop/lid; other site 272562005950 ABC transporter signature motif; other site 272562005951 Walker B; other site 272562005952 D-loop; other site 272562005953 H-loop/switch region; other site 272562005954 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 272562005955 ABC-ATPase subunit interface; other site 272562005956 dimer interface [polypeptide binding]; other site 272562005957 putative PBP binding regions; other site 272562005958 MOSC domain; Region: MOSC; pfam03473 272562005959 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 272562005960 trimer interface [polypeptide binding]; other site 272562005961 dimer interface [polypeptide binding]; other site 272562005962 putative active site [active] 272562005963 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 272562005964 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 272562005965 FeS/SAM binding site; other site 272562005966 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 272562005967 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 272562005968 MPT binding site; other site 272562005969 trimer interface [polypeptide binding]; other site 272562005970 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 272562005971 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 272562005972 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272562005973 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 272562005974 Walker A/P-loop; other site 272562005975 ATP binding site [chemical binding]; other site 272562005976 Q-loop/lid; other site 272562005977 ABC transporter signature motif; other site 272562005978 Walker B; other site 272562005979 D-loop; other site 272562005980 H-loop/switch region; other site 272562005981 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 272562005982 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 272562005983 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 272562005984 dimer interface [polypeptide binding]; other site 272562005985 PYR/PP interface [polypeptide binding]; other site 272562005986 TPP binding site [chemical binding]; other site 272562005987 substrate binding site [chemical binding]; other site 272562005988 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 272562005989 TPP-binding site; other site 272562005990 4Fe-4S binding domain; Region: Fer4; cl02805 272562005991 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272562005992 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272562005993 FtsX-like permease family; Region: FtsX; pfam02687 272562005994 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 272562005995 FtsX-like permease family; Region: FtsX; pfam02687 272562005996 Uncharacterized protein containing a NRPS condensation (elongation) domain [General function prediction only]; Region: COG4908 272562005997 Uncharacterized protein containing a NRPS condensation (elongation) domain [General function prediction only]; Region: COG4908 272562005998 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 272562005999 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 272562006000 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 272562006001 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 272562006002 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 272562006003 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 272562006004 dimer interface [polypeptide binding]; other site 272562006005 active site 272562006006 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 272562006007 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 272562006008 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 272562006009 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 272562006010 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 272562006011 FeS/SAM binding site; other site 272562006012 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 272562006013 'initiating' condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are characterized by the...; Region: init_cond_enzymes; cd00827 272562006014 dimer interface [polypeptide binding]; other site 272562006015 active site 272562006016 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 272562006017 substrate binding site [chemical binding]; other site 272562006018 oxyanion hole (OAH) forming residues; other site 272562006019 trimer interface [polypeptide binding]; other site 272562006020 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 272562006021 active site 272562006022 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 272562006023 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 272562006024 substrate binding site [chemical binding]; other site 272562006025 oxyanion hole (OAH) forming residues; other site 272562006026 trimer interface [polypeptide binding]; other site 272562006027 Phosphopantetheine attachment site; Region: PP-binding; cl09936 272562006028 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 272562006029 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 272562006030 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 272562006031 Acyl transferase domain; Region: Acyl_transf_1; cl08282 272562006032 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 272562006033 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 272562006034 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 272562006035 dimer interface [polypeptide binding]; other site 272562006036 putative functional site; other site 272562006037 putative MPT binding site; other site 272562006038 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 272562006039 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 272562006040 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 272562006041 dimer interface [polypeptide binding]; other site 272562006042 putative functional site; other site 272562006043 putative MPT binding site; other site 272562006044 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 272562006045 MPT binding site; other site 272562006046 trimer interface [polypeptide binding]; other site 272562006047 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 272562006048 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 272562006049 hydrophobic ligand binding site; other site 272562006050 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272562006051 Protein of unknown function (DUF4237); Region: DUF4237; pfam14021 272562006052 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 272562006053 Preprotein translocase subunit; Region: YajC; cl00806 272562006054 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272562006055 The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme...; Region: ABC_BcrA_bacitracin_resist; cd03268 272562006056 Walker A/P-loop; other site 272562006057 ATP binding site [chemical binding]; other site 272562006058 Q-loop/lid; other site 272562006059 ABC transporter signature motif; other site 272562006060 Walker B; other site 272562006061 D-loop; other site 272562006062 H-loop/switch region; other site 272562006063 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272562006064 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 272562006065 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 272562006066 putative active site [active] 272562006067 3D domain; Region: 3D; cl01439 272562006068 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 272562006069 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 272562006070 PrgI family protein; Region: PrgI; pfam12666 272562006071 DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]; Region: RpoD; COG0568 272562006072 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272562006073 Winged helix-turn helix; Region: HTH_29; pfam13551 272562006074 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272562006075 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 272562006076 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 272562006077 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 272562006078 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 272562006079 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 272562006080 ScpA/B protein; Region: ScpA_ScpB; cl00598 272562006081 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 272562006082 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 272562006083 active site 272562006084 NTP binding site [chemical binding]; other site 272562006085 metal binding triad [ion binding]; metal-binding site 272562006086 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 272562006087 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 272562006088 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 272562006089 Sulfatase; Region: Sulfatase; cl10460 272562006090 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 272562006091 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 272562006092 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 272562006093 Int/Topo IB signature motif; other site 272562006094 active site 272562006095 Integral membrane protein DUF95; Region: DUF95; cl00572 272562006096 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 272562006097 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 272562006098 active site 272562006099 phosphorylation site [posttranslational modification] 272562006100 intermolecular recognition site; other site 272562006101 dimerization interface [polypeptide binding]; other site 272562006102 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 272562006103 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 272562006104 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 272562006105 protein binding site [polypeptide binding]; other site 272562006106 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 272562006107 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 272562006108 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 272562006109 Walker A/P-loop; other site 272562006110 ATP binding site [chemical binding]; other site 272562006111 Q-loop/lid; other site 272562006112 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 272562006113 ABC transporter signature motif; other site 272562006114 Walker B; other site 272562006115 D-loop; other site 272562006116 H-loop/switch region; other site 272562006117 arginine repressor; Provisional; Region: argR; PRK00441 272562006118 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 272562006119 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 272562006120 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 272562006121 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 272562006122 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 272562006123 RNA binding surface [nucleotide binding]; other site 272562006124 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 272562006125 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 272562006126 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 272562006127 TPP-binding site; other site 272562006128 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 272562006129 PYR/PP interface [polypeptide binding]; other site 272562006130 dimer interface [polypeptide binding]; other site 272562006131 TPP binding site [chemical binding]; other site 272562006132 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272562006133 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 272562006134 substrate binding pocket [chemical binding]; other site 272562006135 chain length determination region; other site 272562006136 substrate-Mg2+ binding site; other site 272562006137 catalytic residues [active] 272562006138 aspartate-rich region 1; other site 272562006139 active site lid residues [active] 272562006140 aspartate-rich region 2; other site 272562006141 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 272562006142 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 272562006143 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 272562006144 generic binding surface I; other site 272562006145 generic binding surface II; other site 272562006146 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14172 272562006147 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 272562006148 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 272562006149 homodimer interface [polypeptide binding]; other site 272562006150 NADP binding site [chemical binding]; other site 272562006151 substrate binding site [chemical binding]; other site 272562006152 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 272562006153 putative RNA binding site [nucleotide binding]; other site 272562006154 Protein of unknown function (DUF322); Region: DUF322; cl00574 272562006155 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 272562006156 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 272562006157 stage III sporulation protein AF; Region: spore_III_AF; TIGR02896 272562006158 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 272562006159 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; cl09771 272562006160 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 272562006161 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 272562006162 Stage III sporulation protein AB (spore_III_AB); Region: Spore_III_AB; cl08022 272562006163 ncharacterized protein conserved in bacteria [Function unknown]; Region: SpoIIIAA; COG3854 272562006164 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562006165 elongation factor P; Validated; Region: PRK00529 272562006166 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 272562006167 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 272562006168 RNA binding site [nucleotide binding]; other site 272562006169 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 272562006170 RNA binding site [nucleotide binding]; other site 272562006171 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 272562006172 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 272562006173 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 272562006174 active site 272562006175 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 272562006176 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 272562006177 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 272562006178 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 272562006179 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 272562006180 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 272562006181 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 272562006182 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 272562006183 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 272562006184 Walker A motif; other site 272562006185 ATP binding site [chemical binding]; other site 272562006186 Walker B motif; other site 272562006187 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 272562006188 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 272562006189 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 272562006190 trimer interface [polypeptide binding]; other site 272562006191 active site 272562006192 substrate binding site [chemical binding]; other site 272562006193 CoA binding site [chemical binding]; other site 272562006194 GAF domain; Region: GAF; cl00853 272562006195 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 272562006196 Domain of unknown function (DUF814); Region: DUF814; pfam05670 272562006197 Permease family; Region: Xan_ur_permease; cl00967 272562006198 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 272562006199 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 272562006200 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 272562006201 RNA binding surface [nucleotide binding]; other site 272562006202 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 272562006203 active site 272562006204 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 272562006205 lipoprotein signal peptidase; Provisional; Region: PRK14787 272562006206 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 272562006207 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 272562006208 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Provisional; Region: PRK07164 272562006209 DivIVA protein; Region: DivIVA; pfam05103 272562006210 DivIVA domain; Region: DivI1A_domain; TIGR03544 272562006211 YGGT family; Region: YGGT; cl00508 272562006212 Protein of unknown function (DUF552); Region: DUF552; cl00775 272562006213 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 272562006214 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272562006215 catalytic residue [active] 272562006216 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 272562006217 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 272562006218 Protein of unknown function (DUF1290); Region: DUF1290; cl01587 272562006219 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 272562006220 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 272562006221 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 272562006222 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 272562006223 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 272562006224 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 272562006225 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 272562006226 Mg++ binding site [ion binding]; other site 272562006227 putative catalytic motif [active] 272562006228 putative substrate binding site [chemical binding]; other site 272562006229 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 272562006230 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 272562006231 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272562006232 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272562006233 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 272562006234 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 272562006235 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 272562006236 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272562006237 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 272562006238 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 272562006239 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272562006240 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 272562006241 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 272562006242 Septum formation initiator; Region: DivIC; cl11433 272562006243 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 272562006244 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 272562006245 cell division protein MraZ; Reviewed; Region: PRK00326 272562006246 MraZ protein; Region: MraZ; pfam02381 272562006247 MraZ protein; Region: MraZ; pfam02381 272562006248 GTP-binding protein YchF; Reviewed; Region: PRK09601 272562006249 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 272562006250 G1 box; other site 272562006251 GTP/Mg2+ binding site [chemical binding]; other site 272562006252 Switch I region; other site 272562006253 G2 box; other site 272562006254 Switch II region; other site 272562006255 G3 box; other site 272562006256 G4 box; other site 272562006257 G5 box; other site 272562006258 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 272562006259 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 272562006260 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 272562006261 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 272562006262 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 272562006263 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272562006264 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272562006265 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 272562006266 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 272562006267 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 272562006268 DHHA2 domain; Region: DHHA2; pfam02833 272562006269 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12817 272562006270 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 272562006271 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 272562006272 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12818 272562006273 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 272562006274 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 272562006275 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 272562006276 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272562006277 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 272562006278 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 272562006279 DNA binding residues [nucleotide binding] 272562006280 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 272562006281 Flagellar protein YcgR; Region: YcgR_2; pfam12945 272562006282 PilZ domain; Region: PilZ; cl01260 272562006283 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 272562006284 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 272562006285 P-loop; other site 272562006286 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 272562006287 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562006288 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 272562006289 FHIPEP family; Region: FHIPEP; pfam00771 272562006290 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional; Region: PRK12772 272562006291 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 272562006292 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 272562006293 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 272562006294 FliP family; Region: FliP; cl00593 272562006295 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 272562006296 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 272562006297 Flagellar protein (FlbD); Region: FlbD; cl00683 272562006298 Flagellar hook protein FlgE [Cell motility and secretion]; Region: FlgE; COG1749 272562006299 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 272562006300 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 272562006301 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 272562006302 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 272562006303 Flagellar hook capping protein [Cell motility and secretion]; Region: FlgD; COG1843 272562006304 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 272562006305 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 272562006306 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 272562006307 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 272562006308 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 272562006309 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 272562006310 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 272562006311 Walker A motif/ATP binding site; other site 272562006312 Walker B motif; other site 272562006313 Flagellar biosynthesis/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliH; COG1317 272562006314 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 272562006315 FliG C-terminal domain; Region: FliG_C; pfam01706 272562006316 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 272562006317 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 272562006318 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 272562006319 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 272562006320 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12630 272562006321 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 272562006322 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12623 272562006323 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 272562006324 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 272562006325 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562006326 NAD(P) binding site [chemical binding]; other site 272562006327 active site 272562006328 flagellin; Provisional; Region: PRK12804 272562006329 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 272562006330 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 272562006331 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 272562006332 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 272562006333 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562006334 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562006335 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 272562006336 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 272562006337 Probable Catalytic site; other site 272562006338 metal-binding site 272562006339 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 272562006340 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 272562006341 Probable Catalytic site; other site 272562006342 metal-binding site 272562006343 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 272562006344 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 272562006345 active site 272562006346 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 272562006347 active site 272562006348 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 272562006349 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 272562006350 active site 272562006351 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 272562006352 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 272562006353 active site 272562006354 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 272562006355 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 272562006356 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 272562006357 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 272562006358 inhibitor-cofactor binding pocket; inhibition site 272562006359 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562006360 catalytic residue [active] 272562006361 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 272562006362 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 272562006363 NADP binding site [chemical binding]; other site 272562006364 active site 272562006365 putative substrate binding site [chemical binding]; other site 272562006366 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 272562006367 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 272562006368 NADP-binding site; other site 272562006369 homotetramer interface [polypeptide binding]; other site 272562006370 substrate binding site [chemical binding]; other site 272562006371 homodimer interface [polypeptide binding]; other site 272562006372 active site 272562006373 Putative motility protein; Region: YjfB_motility; pfam14070 272562006374 Domain of unknown function (DUF1919); Region: DUF1919; cl01628 272562006375 Domain of unknown function (DUF1919); Region: DUF1919; cl01628 272562006376 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 272562006377 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 272562006378 pseudaminic acid synthase; Region: PseI; TIGR03586 272562006379 NeuB family; Region: NeuB; cl00496 272562006380 SAF domain; Region: SAF; cl00555 272562006381 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272562006382 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 272562006383 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 272562006384 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 272562006385 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 272562006386 ligand binding site; other site 272562006387 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 272562006388 dimer interface [polypeptide binding]; other site 272562006389 substrate binding site [chemical binding]; other site 272562006390 metal binding site [ion binding]; metal-binding site 272562006391 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 272562006392 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 272562006393 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 272562006394 NAD(P) binding site [chemical binding]; other site 272562006395 homodimer interface [polypeptide binding]; other site 272562006396 substrate binding site [chemical binding]; other site 272562006397 active site 272562006398 Uncharacterized protein conserved in bacteria with an aminopeptidase-like domain [General function prediction only]; Region: COG4310 272562006399 M28 Zn-Peptidases; Region: M28_like_3; cd05644 272562006400 active site 272562006401 metal binding site [ion binding]; metal-binding site 272562006402 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 272562006403 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; cl01051 272562006404 Phosphopantetheine attachment site; Region: PP-binding; cl09936 272562006405 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 272562006406 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272562006407 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 272562006408 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 272562006409 flagellin; Provisional; Region: PRK12804 272562006410 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 272562006411 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 272562006412 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 272562006413 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 272562006414 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 272562006415 Flagellar protein FliS; Region: FliS; cl00654 272562006416 FlaG protein; Region: FlaG; cl00591 272562006417 Global regulator protein family; Region: CsrA; cl00670 272562006418 FliW protein; Region: FliW; cl00740 272562006419 flagellar hook-associated protein FlgL; Validated; Region: PRK06663 272562006420 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 272562006421 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 272562006422 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 272562006423 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 272562006424 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 272562006425 FlgN protein; Region: FlgN; cl09176 272562006426 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 272562006427 flagellar motor switch protein; Validated; Region: PRK08119 272562006428 CheC-like family; Region: CheC; pfam04509 272562006429 CheC-like family; Region: CheC; pfam04509 272562006430 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 272562006431 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 272562006432 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 272562006433 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 272562006434 Response regulator receiver domain; Region: Response_reg; pfam00072 272562006435 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 272562006436 active site 272562006437 phosphorylation site [posttranslational modification] 272562006438 intermolecular recognition site; other site 272562006439 dimerization interface [polypeptide binding]; other site 272562006440 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 272562006441 CheC-like family; Region: CheC; pfam04509 272562006442 CheC-like family; Region: CheC; pfam04509 272562006443 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 272562006444 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 272562006445 putative binding surface; other site 272562006446 active site 272562006447 P2 response regulator binding domain; Region: P2; pfam07194 272562006448 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 272562006449 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 272562006450 ATP binding site [chemical binding]; other site 272562006451 Mg2+ binding site [ion binding]; other site 272562006452 G-X-G motif; other site 272562006453 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 272562006454 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 272562006455 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 272562006456 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562006457 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 272562006458 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 272562006459 active site 272562006460 phosphorylation site [posttranslational modification] 272562006461 intermolecular recognition site; other site 272562006462 dimerization interface [polypeptide binding]; other site 272562006463 CheB methylesterase; Region: CheB_methylest; pfam01339 272562006464 CheD chemotactic sensory transduction; Region: CheD; cl00810 272562006465 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 272562006466 Uncharacterized conserved protein [Function unknown]; Region: COG1315 272562006467 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cd00449 272562006468 homodimer interface [polypeptide binding]; other site 272562006469 substrate-cofactor binding pocket; other site 272562006470 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562006471 catalytic residue [active] 272562006472 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272562006473 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 272562006474 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 272562006475 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 272562006476 dimer interface [polypeptide binding]; other site 272562006477 PYR/PP interface [polypeptide binding]; other site 272562006478 TPP binding site [chemical binding]; other site 272562006479 substrate binding site [chemical binding]; other site 272562006480 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 272562006481 Domain of unknown function; Region: EKR; cl11037 272562006482 4Fe-4S binding domain; Region: Fer4; cl02805 272562006483 4Fe-4S binding domain; Region: Fer4; cl02805 272562006484 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 272562006485 TPP-binding site [chemical binding]; other site 272562006486 dimer interface [polypeptide binding]; other site 272562006487 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 272562006488 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 272562006489 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 272562006490 active site 272562006491 homodimer interface [polypeptide binding]; other site 272562006492 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 272562006493 DHH family; Region: DHH; pfam01368 272562006494 DHHA1 domain; Region: DHHA1; pfam02272 272562006495 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 272562006496 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 272562006497 Ligand Binding Site [chemical binding]; other site 272562006498 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 272562006499 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 272562006500 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272562006501 catalytic residue [active] 272562006502 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 272562006503 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 272562006504 dimer interface [polypeptide binding]; other site 272562006505 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562006506 catalytic residue [active] 272562006507 Predicted transcriptional regulator [Transcription]; Region: COG1959 272562006508 Helix-turn-helix domains; Region: HTH; cl00088 272562006509 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 272562006510 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 272562006511 ligand binding site; other site 272562006512 oligomer interface; other site 272562006513 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 272562006514 dimer interface [polypeptide binding]; other site 272562006515 N-terminal domain interface [polypeptide binding]; other site 272562006516 sulfate 1 binding site; other site 272562006517 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 272562006518 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 272562006519 ligand binding site; other site 272562006520 oligomer interface; other site 272562006521 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 272562006522 dimer interface [polypeptide binding]; other site 272562006523 N-terminal domain interface [polypeptide binding]; other site 272562006524 sulfate 1 binding site; other site 272562006525 glycogen synthase; Provisional; Region: glgA; PRK00654 272562006526 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 272562006527 ADP-binding pocket [chemical binding]; other site 272562006528 homodimer interface [polypeptide binding]; other site 272562006529 The family 20 carbohydrate-binding module (CBM20), also known as the starch-binding domain, is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is...; Region: CBM20; cd05467 272562006530 starch-binding site 2 [chemical binding]; other site 272562006531 starch-binding site 1 [chemical binding]; other site 272562006532 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 272562006533 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 272562006534 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272562006535 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272562006536 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 272562006537 dimerization interface [polypeptide binding]; other site 272562006538 putative DNA binding site [nucleotide binding]; other site 272562006539 putative Zn2+ binding site [ion binding]; other site 272562006540 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 272562006541 active site 272562006542 dimer interface [polypeptide binding]; other site 272562006543 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 272562006544 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 272562006545 Ligand Binding Site [chemical binding]; other site 272562006546 Molecular Tunnel; other site 272562006547 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 272562006548 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 272562006549 active site 272562006550 motif I; other site 272562006551 motif II; other site 272562006552 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272562006553 OsmC-like protein; Region: OsmC; cl00767 272562006554 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 272562006555 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272562006556 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 272562006557 putative catalytic residues [active] 272562006558 catalytic nucleophile [active] 272562006559 Recombinase; Region: Recombinase; pfam07508 272562006560 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 272562006561 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 272562006562 probable DNA repair protein; Region: TIGR03623 272562006563 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 272562006564 active site 272562006565 tetramer interface; other site 272562006566 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 272562006567 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 272562006568 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 272562006569 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 272562006570 active site 272562006571 catalytic site [active] 272562006572 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 272562006573 Histidine kinase; Region: HisKA_3; pfam07730 272562006574 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 272562006575 Response regulator receiver domain; Region: Response_reg; pfam00072 272562006576 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 272562006577 active site 272562006578 phosphorylation site [posttranslational modification] 272562006579 intermolecular recognition site; other site 272562006580 dimerization interface [polypeptide binding]; other site 272562006581 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 272562006582 DNA binding residues [nucleotide binding] 272562006583 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 272562006584 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 272562006585 FtsX-like permease family; Region: FtsX; cl15850 272562006586 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272562006587 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 272562006588 Walker A/P-loop; other site 272562006589 ATP binding site [chemical binding]; other site 272562006590 Q-loop/lid; other site 272562006591 ABC transporter signature motif; other site 272562006592 Walker B; other site 272562006593 D-loop; other site 272562006594 H-loop/switch region; other site 272562006595 Helix-turn-helix domains; Region: HTH; cl00088 272562006596 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 272562006597 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 272562006598 inhibitor-cofactor binding pocket; inhibition site 272562006599 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562006600 catalytic residue [active] 272562006601 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 272562006602 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in...; Region: YhaM_OBF_like; cd04492 272562006603 generic binding surface II; other site 272562006604 generic binding surface I; other site 272562006605 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272562006606 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 272562006607 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562006608 Family description; Region: UvrD_C_2; cl15862 272562006609 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 272562006610 ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]; Region: AddB; COG3857 272562006611 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 272562006612 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 272562006613 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 272562006614 dimer interface [polypeptide binding]; other site 272562006615 glycine-pyridoxal phosphate binding site [chemical binding]; other site 272562006616 active site 272562006617 folate binding site [chemical binding]; other site 272562006618 Uncharacterized conserved protein [Function unknown]; Region: COG2966 272562006619 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 272562006620 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 272562006621 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 272562006622 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 272562006623 putative homotetramer interface [polypeptide binding]; other site 272562006624 putative homodimer interface [polypeptide binding]; other site 272562006625 putative allosteric switch controlling residues; other site 272562006626 putative metal binding site [ion binding]; other site 272562006627 putative homodimer-homodimer interface [polypeptide binding]; other site 272562006628 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 272562006629 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 272562006630 dimer interface [polypeptide binding]; other site 272562006631 anticodon binding site; other site 272562006632 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 272562006633 homodimer interface [polypeptide binding]; other site 272562006634 motif 1; other site 272562006635 active site 272562006636 motif 2; other site 272562006637 GAD domain; Region: GAD; pfam02938 272562006638 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 272562006639 motif 3; other site 272562006640 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 272562006641 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 272562006642 FeS/SAM binding site; other site 272562006643 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272562006644 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 272562006645 dimerization interface [polypeptide binding]; other site 272562006646 putative tRNAtyr binding site [nucleotide binding]; other site 272562006647 putative active site [active] 272562006648 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 272562006649 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272562006650 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 272562006651 synthetase active site [active] 272562006652 NTP binding site [chemical binding]; other site 272562006653 metal binding site [ion binding]; metal-binding site 272562006654 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 272562006655 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 272562006656 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 272562006657 DHH family; Region: DHH; pfam01368 272562006658 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 272562006659 Protein export membrane protein; Region: SecD_SecF; cl14618 272562006660 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 272562006661 Protein export membrane protein; Region: SecD_SecF; cl14618 272562006662 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 272562006663 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 272562006664 FeS/SAM binding site; other site 272562006665 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 272562006666 Protein of unknown function (DUF3792); Region: DUF3792; cl14821 272562006667 Preprotein translocase subunit; Region: YajC; cl00806 272562006668 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 272562006669 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 272562006670 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 272562006671 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 272562006672 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 272562006673 Walker A motif; other site 272562006674 ATP binding site [chemical binding]; other site 272562006675 Walker B motif; other site 272562006676 arginine finger; other site 272562006677 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 272562006678 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 272562006679 RuvA N terminal domain; Region: RuvA_N; pfam01330 272562006680 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 272562006681 Acyl-CoA reductase LuxC; Region: ALDH_Acyl-CoA-Red_LuxC; cd07080 272562006682 Acyl-CoA reductase (LuxC); Region: LuxC; pfam05893 272562006683 putative catalytic cysteine [active] 272562006684 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 272562006685 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 272562006686 carboxyltransferase (CT) interaction site; other site 272562006687 biotinylation site [posttranslational modification]; other site 272562006688 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 272562006689 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 272562006690 Peptidase propeptide and YPEB domain; Region: PepSY; cl15480 272562006691 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 272562006692 active site 272562006693 Zn binding site [ion binding]; other site 272562006694 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 272562006695 Clostridial hydrophobic W; Region: ChW; cl02763 272562006696 Clostridial hydrophobic W; Region: ChW; cl02763 272562006697 Clostridial hydrophobic W; Region: ChW; cl02763 272562006698 Clostridial hydrophobic W; Region: ChW; cl02763 272562006699 Clostridial hydrophobic W; Region: ChW; cl02763 272562006700 Clostridial hydrophobic W; Region: ChW; cl02763 272562006701 Domain of unknown function DUF28; Region: DUF28; cl00361 272562006702 Uncharacterized conserved protein [Function unknown]; Region: COG1739 272562006703 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 272562006704 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 272562006705 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 272562006706 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272562006707 DNA-binding site [nucleotide binding]; DNA binding site 272562006708 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 272562006709 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562006710 homodimer interface [polypeptide binding]; other site 272562006711 catalytic residue [active] 272562006712 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 272562006713 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 272562006714 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 272562006715 HflX GTPase family; Region: HflX; cd01878 272562006716 G1 box; other site 272562006717 GTP/Mg2+ binding site [chemical binding]; other site 272562006718 Switch I region; other site 272562006719 G2 box; other site 272562006720 G3 box; other site 272562006721 Switch II region; other site 272562006722 G4 box; other site 272562006723 G5 box; other site 272562006724 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 272562006725 Transglycosylase; Region: Transgly; cl07896 272562006726 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 272562006727 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272562006728 Stage V sporulation protein AE1; Region: SpoVAE; pfam14097 272562006729 SpoVA protein; Region: SpoVA; cl04298 272562006730 stage V sporulation protein AD; Validated; Region: PRK08304 272562006731 stage V sporulation protein AD; Provisional; Region: PRK12404 272562006732 SpoVA protein; Region: SpoVA; cl04298 272562006733 sporulation sigma factor SigF; Validated; Region: PRK05572 272562006734 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272562006735 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 272562006736 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 272562006737 DNA binding residues [nucleotide binding] 272562006738 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 272562006739 ATP binding site [chemical binding]; other site 272562006740 Mg2+ binding site [ion binding]; other site 272562006741 G-X-G motif; other site 272562006742 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 272562006743 anti sigma factor interaction site; other site 272562006744 regulatory phosphorylation site [posttranslational modification]; other site 272562006745 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 272562006746 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562006747 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 272562006748 Formiminotransferase-cyclodeaminase; Region: FTCD_C; cl01350 272562006749 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 272562006750 putative FMN binding site [chemical binding]; other site 272562006751 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 272562006752 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 272562006753 Probable Catalytic site; other site 272562006754 metal-binding site 272562006755 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 272562006756 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 272562006757 MatE; Region: MatE; cl10513 272562006758 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 272562006759 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 272562006760 NADP binding site [chemical binding]; other site 272562006761 active site 272562006762 putative substrate binding site [chemical binding]; other site 272562006763 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 272562006764 putative active site [active] 272562006765 putative metal binding site [ion binding]; other site 272562006766 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 272562006767 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 272562006768 O-Antigen ligase; Region: Wzy_C; cl04850 272562006769 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 272562006770 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 272562006771 Probable Catalytic site; other site 272562006772 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 272562006773 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 272562006774 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 272562006775 Probable Catalytic site; other site 272562006776 metal-binding site 272562006777 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 272562006778 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 272562006779 Ligand binding site; other site 272562006780 Putative Catalytic site; other site 272562006781 DXD motif; other site 272562006782 Clostridial hydrophobic W; Region: ChW; cl02763 272562006783 Clostridial hydrophobic W; Region: ChW; cl02763 272562006784 Clostridial hydrophobic W; Region: ChW; cl02763 272562006785 Clostridial hydrophobic W; Region: ChW; cl02763 272562006786 Clostridial hydrophobic W; Region: ChW; cl02763 272562006787 Clostridial hydrophobic W; Region: ChW; cl02763 272562006788 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 272562006789 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 272562006790 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 272562006791 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272562006792 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 272562006793 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 272562006794 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 272562006795 Probable Catalytic site; other site 272562006796 metal-binding site 272562006797 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 272562006798 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 272562006799 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 272562006800 Walker A/P-loop; other site 272562006801 ATP binding site [chemical binding]; other site 272562006802 Q-loop/lid; other site 272562006803 ABC transporter signature motif; other site 272562006804 Walker B; other site 272562006805 D-loop; other site 272562006806 H-loop/switch region; other site 272562006807 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 272562006808 putative carbohydrate binding site [chemical binding]; other site 272562006809 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272562006810 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 272562006811 Bacterial sugar transferase; Region: Bac_transf; cl00939 272562006812 Cupin domain; Region: Cupin_2; cl09118 272562006813 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 272562006814 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 272562006815 NAD binding site [chemical binding]; other site 272562006816 substrate binding site [chemical binding]; other site 272562006817 homodimer interface [polypeptide binding]; other site 272562006818 active site 272562006819 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 272562006820 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 272562006821 substrate binding site; other site 272562006822 tetramer interface; other site 272562006823 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 272562006824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562006825 NAD(P) binding site [chemical binding]; other site 272562006826 active site 272562006827 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 272562006828 active site 272562006829 tetramer interface; other site 272562006830 Tetratricopeptide repeat; Region: TPR_12; pfam13424 272562006831 Tetratricopeptide repeat; Region: TPR_12; pfam13424 272562006832 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 272562006833 binding surface 272562006834 TPR motif; other site 272562006835 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 272562006836 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 272562006837 active site 272562006838 substrate binding site [chemical binding]; other site 272562006839 metal binding site [ion binding]; metal-binding site 272562006840 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 272562006841 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 272562006842 homodimer interface [polypeptide binding]; other site 272562006843 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562006844 catalytic residue [active] 272562006845 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 272562006846 Protein of unknown function (DUF523); Region: DUF523; cl00733 272562006847 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 272562006848 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 272562006849 Walker A/P-loop; other site 272562006850 ATP binding site [chemical binding]; other site 272562006851 Q-loop/lid; other site 272562006852 ABC transporter signature motif; other site 272562006853 Walker B; other site 272562006854 D-loop; other site 272562006855 H-loop/switch region; other site 272562006856 Smr domain; Region: Smr; cl02619 272562006857 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 272562006858 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 272562006859 Peptidase family U32; Region: Peptidase_U32; cl03113 272562006860 Collagenase; Region: DUF3656; pfam12392 272562006861 Peptidase family U32; Region: Peptidase_U32; cl03113 272562006862 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 272562006863 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 272562006864 trimer interface [polypeptide binding]; other site 272562006865 active site 272562006866 substrate binding site [chemical binding]; other site 272562006867 CoA binding site [chemical binding]; other site 272562006868 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272562006869 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 272562006870 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 272562006871 active site 272562006872 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 272562006873 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 272562006874 active site 272562006875 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 272562006876 Probable Catalytic site; other site 272562006877 metal-binding site 272562006878 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 272562006879 active site 272562006880 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 272562006881 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 272562006882 inhibitor-cofactor binding pocket; inhibition site 272562006883 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562006884 catalytic residue [active] 272562006885 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 272562006886 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 272562006887 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 272562006888 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 272562006889 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272562006890 catalytic residue [active] 272562006891 Cell division protein ZapA; Region: ZapA; cl01146 272562006892 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 272562006893 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 272562006894 putative tRNA-binding site [nucleotide binding]; other site 272562006895 B3/4 domain; Region: B3_4; cl11458 272562006896 tRNA synthetase B5 domain; Region: B5; cl08394 272562006897 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 272562006898 dimer interface [polypeptide binding]; other site 272562006899 motif 1; other site 272562006900 motif 3; other site 272562006901 motif 2; other site 272562006902 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 272562006903 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 272562006904 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 272562006905 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 272562006906 dimer interface [polypeptide binding]; other site 272562006907 motif 1; other site 272562006908 active site 272562006909 motif 2; other site 272562006910 motif 3; other site 272562006911 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 272562006912 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 272562006913 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 272562006914 ribosomal protein L20; Region: rpl20; CHL00068 272562006915 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 272562006916 23S rRNA binding site [nucleotide binding]; other site 272562006917 L21 binding site [polypeptide binding]; other site 272562006918 L13 binding site [polypeptide binding]; other site 272562006919 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 272562006920 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 272562006921 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 272562006922 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 272562006923 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 272562006924 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 272562006925 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 272562006926 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 272562006927 active site 272562006928 dimer interface [polypeptide binding]; other site 272562006929 motif 1; other site 272562006930 motif 2; other site 272562006931 motif 3; other site 272562006932 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 272562006933 anticodon binding site; other site 272562006934 YtxC-like family; Region: YtxC; cl08500 272562006935 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 272562006936 Clostridial hydrophobic W; Region: ChW; cl02763 272562006937 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 272562006938 Clostridial hydrophobic W; Region: ChW; cl02763 272562006939 Clostridial hydrophobic W; Region: ChW; cl02763 272562006940 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 272562006941 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 272562006942 Clostridial hydrophobic W; Region: ChW; cl02763 272562006943 Clostridial hydrophobic W; Region: ChW; cl02763 272562006944 Clostridial hydrophobic W; Region: ChW; cl02763 272562006945 Clostridial hydrophobic W; Region: ChW; cl02763 272562006946 Clostridial hydrophobic W; Region: ChW; cl02763 272562006947 Clostridial hydrophobic W; Region: ChW; cl02763 272562006948 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 272562006949 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 272562006950 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 272562006951 dimerization interface [polypeptide binding]; other site 272562006952 domain crossover interface; other site 272562006953 redox-dependent activation switch; other site 272562006954 Methyltransferase domain; Region: Methyltransf_31; pfam13847 272562006955 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 272562006956 S-adenosylmethionine binding site [chemical binding]; other site 272562006957 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 272562006958 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 272562006959 dimer interface [polypeptide binding]; other site 272562006960 conserved gate region; other site 272562006961 putative PBP binding loops; other site 272562006962 ABC-ATPase subunit interface; other site 272562006963 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 272562006964 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 272562006965 dimer interface [polypeptide binding]; other site 272562006966 conserved gate region; other site 272562006967 putative PBP binding loops; other site 272562006968 ABC-ATPase subunit interface; other site 272562006969 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 272562006970 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 272562006971 dihydrodipicolinate synthase; Region: dapA; TIGR00674 272562006972 dimer interface [polypeptide binding]; other site 272562006973 active site 272562006974 catalytic residue [active] 272562006975 dihydrodipicolinate reductase; Provisional; Region: PRK00048 272562006976 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562006977 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 272562006978 aminotransferase A; Validated; Region: PRK07683 272562006979 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 272562006980 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562006981 homodimer interface [polypeptide binding]; other site 272562006982 catalytic residue [active] 272562006983 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapD_N; pfam08503 272562006984 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 272562006985 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 272562006986 active site 272562006987 trimer interface [polypeptide binding]; other site 272562006988 substrate binding site [chemical binding]; other site 272562006989 CoA binding site [chemical binding]; other site 272562006990 single-stranded DNA-binding protein; Provisional; Region: PRK05813 272562006991 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 272562006992 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 272562006993 dimer interface [polypeptide binding]; other site 272562006994 ssDNA binding site [nucleotide binding]; other site 272562006995 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272562006996 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 272562006997 NodB motif; other site 272562006998 active site 272562006999 catalytic site [active] 272562007000 metal binding site [ion binding]; metal-binding site 272562007001 Domain of unknown function (DUF4364); Region: DUF4364; pfam14277 272562007002 Uncharacterized conserved protein [Function unknown]; Region: COG3391 272562007003 TSCPD domain; Region: TSCPD; cl14834 272562007004 acetylornithine aminotransferase; Provisional; Region: PRK02627 272562007005 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 272562007006 inhibitor-cofactor binding pocket; inhibition site 272562007007 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562007008 catalytic residue [active] 272562007009 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 272562007010 homohexameric interface [polypeptide binding]; other site 272562007011 feedback inhibition sensing region; other site 272562007012 nucleotide binding site [chemical binding]; other site 272562007013 N-acetyl-L-glutamate binding site [chemical binding]; other site 272562007014 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 272562007015 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562007016 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 272562007017 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 272562007018 heterotetramer interface [polypeptide binding]; other site 272562007019 active site pocket [active] 272562007020 cleavage site 272562007021 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272562007022 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272562007023 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 272562007024 Walker A/P-loop; other site 272562007025 ATP binding site [chemical binding]; other site 272562007026 Q-loop/lid; other site 272562007027 ABC transporter signature motif; other site 272562007028 Walker B; other site 272562007029 D-loop; other site 272562007030 H-loop/switch region; other site 272562007031 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272562007032 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272562007033 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562007034 Walker A/P-loop; other site 272562007035 ATP binding site [chemical binding]; other site 272562007036 Q-loop/lid; other site 272562007037 ABC transporter signature motif; other site 272562007038 Walker B; other site 272562007039 D-loop; other site 272562007040 H-loop/switch region; other site 272562007041 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272562007042 Helix-turn-helix domains; Region: HTH; cl00088 272562007043 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 272562007044 dimerization interface [polypeptide binding]; other site 272562007045 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 272562007046 active site 272562007047 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 272562007048 NodB motif; other site 272562007049 active site 272562007050 catalytic site [active] 272562007051 Zn binding site [ion binding]; other site 272562007052 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 272562007053 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 272562007054 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272562007055 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272562007056 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 272562007057 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272562007058 active site 272562007059 HIGH motif; other site 272562007060 nucleotide binding site [chemical binding]; other site 272562007061 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 272562007062 active site 272562007063 KMSKS motif; other site 272562007064 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 272562007065 tRNA binding surface [nucleotide binding]; other site 272562007066 anticodon binding site; other site 272562007067 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 272562007068 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272562007069 active site 272562007070 ATP binding site [chemical binding]; other site 272562007071 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 272562007072 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 272562007073 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 272562007074 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 272562007075 CoA enzyme activase uncharacterised domain (DUF2229); Region: DUF2229; pfam09989 272562007076 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 272562007077 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 272562007078 binding surface 272562007079 TPR motif; other site 272562007080 TPR repeat; Region: TPR_11; pfam13414 272562007081 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 272562007082 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 272562007083 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 272562007084 active site 272562007085 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 272562007086 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272562007087 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 272562007088 MatE; Region: MatE; cl10513 272562007089 Response regulator receiver domain; Region: Response_reg; pfam00072 272562007090 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 272562007091 active site 272562007092 phosphorylation site [posttranslational modification] 272562007093 intermolecular recognition site; other site 272562007094 dimerization interface [polypeptide binding]; other site 272562007095 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 272562007096 active site 272562007097 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 272562007098 RecX family; Region: RecX; cl00936 272562007099 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 272562007100 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 272562007101 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 272562007102 Uncharacterized conserved protein [Function unknown]; Region: COG4127 272562007103 QueT transporter; Region: QueT; cl01932 272562007104 Uncharacterized conserved protein [Function unknown]; Region: COG1543 272562007105 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 272562007106 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 272562007107 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272562007108 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272562007109 Cache domain; Region: Cache_1; pfam02743 272562007110 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 272562007111 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272562007112 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272562007113 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 272562007114 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 272562007115 FeS/SAM binding site; other site 272562007116 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 272562007117 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 272562007118 active site 272562007119 motif I; other site 272562007120 motif II; other site 272562007121 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272562007122 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 272562007123 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 272562007124 active site 272562007125 nucleophile elbow; other site 272562007126 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 272562007127 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 272562007128 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 272562007129 CoA enzyme activase uncharacterised domain (DUF2229); Region: DUF2229; pfam09989 272562007130 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 272562007131 PilZ domain; Region: PilZ; cl01260 272562007132 transcription elongation factor GreA; Region: greA; TIGR01462 272562007133 domain; Region: GreA_GreB_N; pfam03449 272562007134 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 272562007135 Sulfatase; Region: Sulfatase; cl10460 272562007136 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 272562007137 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 272562007138 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 272562007139 protein binding site [polypeptide binding]; other site 272562007140 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 272562007141 dimerization interface [polypeptide binding]; other site 272562007142 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 272562007143 dimer interface [polypeptide binding]; other site 272562007144 phosphorylation site [posttranslational modification] 272562007145 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 272562007146 ATP binding site [chemical binding]; other site 272562007147 Mg2+ binding site [ion binding]; other site 272562007148 G-X-G motif; other site 272562007149 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 272562007150 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 272562007151 active site 272562007152 phosphorylation site [posttranslational modification] 272562007153 intermolecular recognition site; other site 272562007154 dimerization interface [polypeptide binding]; other site 272562007155 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 272562007156 DNA binding site [nucleotide binding] 272562007157 YibE/F-like protein; Region: YibE_F; cl02259 272562007158 Flavin Reductases; Region: FlaRed; cl00801 272562007159 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 272562007160 active site 272562007161 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 272562007162 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 272562007163 Periplasmic binding protein TroA_d. 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_d; cd01141 272562007164 putative ligand binding site [chemical binding]; other site 272562007165 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 272562007166 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 272562007167 ABC-ATPase subunit interface; other site 272562007168 dimer interface [polypeptide binding]; other site 272562007169 putative PBP binding regions; other site 272562007170 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 272562007171 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 272562007172 Walker A/P-loop; other site 272562007173 ATP binding site [chemical binding]; other site 272562007174 Q-loop/lid; other site 272562007175 ABC transporter signature motif; other site 272562007176 Walker B; other site 272562007177 D-loop; other site 272562007178 H-loop/switch region; other site 272562007179 Cysteine-rich small domain; Region: zf-like; cl00946 272562007180 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 272562007181 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 272562007182 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 272562007183 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272562007184 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272562007185 Desulfoferrodoxin [Energy production and conversion]; Region: COG2033 272562007186 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cd00524 272562007187 non-heme iron binding site [ion binding]; other site 272562007188 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 272562007189 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 272562007190 DNA binding residues [nucleotide binding] 272562007191 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 272562007192 S-adenosylmethionine binding site [chemical binding]; other site 272562007193 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272562007194 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 272562007195 2-oxoacid:acceptor oxidoreductase, beta subunit, pyruvate/2-ketoisovalerate family; Region: PorB_KorB; TIGR02177 272562007196 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 272562007197 TPP-binding site [chemical binding]; other site 272562007198 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 272562007199 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 272562007200 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 272562007201 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 272562007202 dimer interface [polypeptide binding]; other site 272562007203 PYR/PP interface [polypeptide binding]; other site 272562007204 TPP binding site [chemical binding]; other site 272562007205 substrate binding site [chemical binding]; other site 272562007206 Protein of unknown function (DUF692); Region: DUF692; cl01263 272562007207 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 272562007208 dimer interface [polypeptide binding]; other site 272562007209 ligand binding site [chemical binding]; other site 272562007210 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; cl02325 272562007211 Predicted acetyltransferase [General function prediction only]; Region: COG3153 272562007212 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272562007213 Coenzyme A binding pocket [chemical binding]; other site 272562007214 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 272562007215 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 272562007216 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272562007217 Helix-turn-helix domains; Region: HTH; cl00088 272562007218 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272562007219 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 272562007220 non-specific DNA binding site [nucleotide binding]; other site 272562007221 salt bridge; other site 272562007222 sequence-specific DNA binding site [nucleotide binding]; other site 272562007223 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 272562007224 active site 272562007225 catalytic residues [active] 272562007226 metal binding site [ion binding]; metal-binding site 272562007227 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 272562007228 TfoX N-terminal domain; Region: TfoX_N; cl01167 272562007229 hypothetical protein; Provisional; Region: PRK11479 272562007230 CAAX protease self-immunity; Region: Abi; cl00558 272562007231 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 272562007232 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272562007233 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562007234 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 272562007235 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 272562007236 active site clefts [active] 272562007237 zinc binding site [ion binding]; other site 272562007238 dimer interface [polypeptide binding]; other site 272562007239 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272562007240 Predicted membrane protein [Function unknown]; Region: COG4129 272562007241 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 272562007242 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 272562007243 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 272562007244 MatE; Region: MatE; cl10513 272562007245 MatE; Region: MatE; cl10513 272562007246 Helix-turn-helix domains; Region: HTH; cl00088 272562007247 Predicted acetyltransferase [General function prediction only]; Region: COG3981 272562007248 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272562007249 Coenzyme A binding pocket [chemical binding]; other site 272562007250 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 272562007251 Helix-turn-helix domains; Region: HTH; cl00088 272562007252 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 272562007253 binding surface 272562007254 TPR motif; other site 272562007255 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 272562007256 binding surface 272562007257 TPR motif; other site 272562007258 Predicted acetyltransferase [General function prediction only]; Region: COG3393 272562007259 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272562007260 Coenzyme A binding pocket [chemical binding]; other site 272562007261 PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain or LH2 (Lipoxygenase homology 2) domain. It consists of an eight stranded beta-barrel. The domain can be found in various domain architectures, in case of lipoxygenases, alpha toxin, lipases and...; Region: PLAT; cl00011 272562007262 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 272562007263 non-specific DNA binding site [nucleotide binding]; other site 272562007264 salt bridge; other site 272562007265 sequence-specific DNA binding site [nucleotide binding]; other site 272562007266 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 272562007267 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272562007268 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 272562007269 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 272562007270 ACS interaction site; other site 272562007271 CODH interaction site; other site 272562007272 cubane metal cluster (B-cluster) [ion binding]; other site 272562007273 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 272562007274 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 272562007275 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 272562007276 dimer interface [polypeptide binding]; other site 272562007277 PYR/PP interface [polypeptide binding]; other site 272562007278 TPP binding site [chemical binding]; other site 272562007279 substrate binding site [chemical binding]; other site 272562007280 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 272562007281 Domain of unknown function; Region: EKR; cl11037 272562007282 4Fe-4S binding domain; Region: Fer4; cl02805 272562007283 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 272562007284 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 272562007285 TPP-binding site [chemical binding]; other site 272562007286 dimer interface [polypeptide binding]; other site 272562007287 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 272562007288 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 272562007289 Domain of unknown function (DUF3787); Region: DUF3787; pfam12655 272562007290 Sporulation protein and related proteins [Cell division and chromosome partitioning]; Region: SpoIID; COG2385 272562007291 Stage II sporulation protein; Region: SpoIID; pfam08486 272562007292 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 272562007293 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 272562007294 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 272562007295 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 272562007296 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272562007297 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272562007298 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 272562007299 putative FMN binding site [chemical binding]; other site 272562007300 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 272562007301 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272562007302 Coenzyme A binding pocket [chemical binding]; other site 272562007303 Domain of unknown function (DUF3784); Region: DUF3784; pfam12650 272562007304 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 272562007305 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 272562007306 Beta-galactosidase, domain 2; Region: BetaGal_dom2; cl11086 272562007307 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 272562007308 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 272562007309 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 272562007310 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 272562007311 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 272562007312 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 272562007313 active site 272562007314 Zn binding site [ion binding]; other site 272562007315 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 272562007316 Peptidase propeptide and YPEB domain; Region: PepSY; cl15480 272562007317 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272562007318 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 272562007319 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 272562007320 Ligand binding site; other site 272562007321 Putative Catalytic site; other site 272562007322 DXD motif; other site 272562007323 putative glycosyltransferase, TIGR03111 family; Region: glyc2_xrt_Gpos1 272562007324 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 272562007325 DXD motif; other site 272562007326 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 272562007327 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; cl15425 272562007328 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 272562007329 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272562007330 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272562007331 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272562007332 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 272562007333 S-adenosylmethionine binding site [chemical binding]; other site 272562007334 Clostridial hydrophobic W; Region: ChW; cl02763 272562007335 Clostridial hydrophobic W; Region: ChW; cl02763 272562007336 Clostridial hydrophobic W; Region: ChW; cl02763 272562007337 Clostridial hydrophobic W; Region: ChW; cl02763 272562007338 Clostridial hydrophobic W; Region: ChW; cl02763 272562007339 Clostridial hydrophobic W; Region: ChW; cl02763 272562007340 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 272562007341 Clostridial hydrophobic W; Region: ChW; cl02763 272562007342 Clostridial hydrophobic W; Region: ChW; cl02763 272562007343 Clostridial hydrophobic W; Region: ChW; cl02763 272562007344 Clostridial hydrophobic W; Region: ChW; cl02763 272562007345 Clostridial hydrophobic W; Region: ChW; cl02763 272562007346 Clostridial hydrophobic W; Region: ChW; cl02763 272562007347 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272562007348 Zn2+ binding site [ion binding]; other site 272562007349 Mg2+ binding site [ion binding]; other site 272562007350 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272562007351 Zn2+ binding site [ion binding]; other site 272562007352 Mg2+ binding site [ion binding]; other site 272562007353 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 272562007354 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 272562007355 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 272562007356 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 272562007357 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 272562007358 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272562007359 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 272562007360 putative ADP-binding pocket [chemical binding]; other site 272562007361 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 272562007362 active site 272562007363 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272562007364 Cation efflux family; Region: Cation_efflux; cl00316 272562007365 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 272562007366 FAD binding domain; Region: FAD_binding_4; pfam01565 272562007367 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 272562007368 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 272562007369 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 272562007370 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 272562007371 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 272562007372 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 272562007373 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 272562007374 Ligand binding site [chemical binding]; other site 272562007375 Electron transfer flavoprotein domain; Region: ETF; pfam01012 272562007376 Transcriptional regulators [Transcription]; Region: FadR; COG2186 272562007377 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272562007378 DNA-binding site [nucleotide binding]; DNA binding site 272562007379 FCD domain; Region: FCD; cl11656 272562007380 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 272562007381 Cache domain; Region: Cache_1; pfam02743 272562007382 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 272562007383 dimerization interface [polypeptide binding]; other site 272562007384 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272562007385 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272562007386 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 272562007387 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4295 272562007388 Uncharacterized protein conserved in bacteria (DUF2263); Region: DUF2263; pfam10021 272562007389 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 272562007390 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 272562007391 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 272562007392 Bacterial RNase HI containing a hybrid binding domain (HBD) at the N-terminus; Region: RNase_HI_bacteria_HBD; cd09277 272562007393 RNA/DNA hybrid binding site [nucleotide binding]; other site 272562007394 active site 272562007395 Helix-turn-helix domains; Region: HTH; cl00088 272562007396 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 272562007397 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; cl09200 272562007398 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 272562007399 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272562007400 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 272562007401 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272562007402 Coenzyme A binding pocket [chemical binding]; other site 272562007403 GGGtGRT protein; Region: GGGtGRT; pfam14057 272562007404 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 272562007405 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 272562007406 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; cl15754 272562007407 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562007408 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 272562007409 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 272562007410 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 272562007411 dimerization interface [polypeptide binding]; other site 272562007412 putative DNA binding site [nucleotide binding]; other site 272562007413 putative Zn2+ binding site [ion binding]; other site 272562007414 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 272562007415 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 272562007416 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 272562007417 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272562007418 Coenzyme A binding pocket [chemical binding]; other site 272562007419 Phosphotransferase enzyme family; Region: APH; pfam01636 272562007420 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 272562007421 active site 272562007422 substrate binding site [chemical binding]; other site 272562007423 ATP binding site [chemical binding]; other site 272562007424 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 272562007425 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 272562007426 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 272562007427 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 272562007428 S-adenosylmethionine binding site [chemical binding]; other site 272562007429 Rubrerythrin [Energy production and conversion]; Region: COG1592 272562007430 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 272562007431 binuclear metal center [ion binding]; other site 272562007432 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 272562007433 iron binding site [ion binding]; other site 272562007434 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 272562007435 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 272562007436 putative glycosyltransferase, TIGR03111 family; Region: glyc2_xrt_Gpos1 272562007437 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 272562007438 DXD motif; other site 272562007439 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 272562007440 Domon-like ligand-binding domains; Region: DOMON_like; cl14783 272562007441 Firmicu-CTERM domain; Region: Firmicu_CTERM; TIGR04145 272562007442 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 272562007443 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 272562007444 Predicted membrane protein [Function unknown]; Region: COG1511 272562007445 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 272562007446 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272562007447 Predicted membrane protein [Function unknown]; Region: COG1511 272562007448 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 272562007449 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272562007450 Clostridial hydrophobic W; Region: ChW; cl02763 272562007451 Clostridial hydrophobic W; Region: ChW; cl02763 272562007452 Clostridial hydrophobic W; Region: ChW; cl02763 272562007453 Clostridial hydrophobic W; Region: ChW; cl02763 272562007454 Clostridial hydrophobic W; Region: ChW; cl02763 272562007455 Clostridial hydrophobic W; Region: ChW; cl02763 272562007456 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 272562007457 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272562007458 metal binding site [ion binding]; metal-binding site 272562007459 active site 272562007460 I-site; other site 272562007461 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 272562007462 Ligand binding site; other site 272562007463 Putative Catalytic site; other site 272562007464 DXD motif; other site 272562007465 putative glycosyltransferase, TIGR03111 family; Region: glyc2_xrt_Gpos1 272562007466 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 272562007467 DXD motif; other site 272562007468 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 272562007469 Domon-like ligand-binding domains; Region: DOMON_like; cl14783 272562007470 putative ligand binding site [chemical binding]; other site 272562007471 Firmicu-CTERM domain; Region: Firmicu_CTERM; TIGR04145 272562007472 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 272562007473 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 272562007474 LysE type translocator; Region: LysE; cl00565 272562007475 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 272562007476 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562007477 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 272562007478 iron-sulfur cluster [ion binding]; other site 272562007479 [2Fe-2S] cluster binding site [ion binding]; other site 272562007480 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 272562007481 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 272562007482 spermidine synthase; Provisional; Region: PRK00811 272562007483 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 272562007484 S-adenosylmethionine binding site [chemical binding]; other site 272562007485 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 272562007486 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272562007487 Helix-turn-helix domains; Region: HTH; cl00088 272562007488 hypothetical protein; Provisional; Region: PRK09273 272562007489 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 272562007490 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 272562007491 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 272562007492 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 272562007493 NADP binding site [chemical binding]; other site 272562007494 homodimer interface [polypeptide binding]; other site 272562007495 active site 272562007496 Cupin domain; Region: Cupin_2; cl09118 272562007497 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272562007498 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272562007499 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272562007500 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 272562007501 active site 272562007502 catalytic motif [active] 272562007503 Zn binding site [ion binding]; other site 272562007504 L-fucose isomerase and related proteins [Carbohydrate transport and metabolism]; Region: FucI; COG2407 272562007505 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cd00578 272562007506 hexamer (dimer of trimers) interface [polypeptide binding]; other site 272562007507 trimer interface [polypeptide binding]; other site 272562007508 substrate binding site [chemical binding]; other site 272562007509 Mn binding site [ion binding]; other site 272562007510 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 272562007511 N- and C-terminal domain interface [polypeptide binding]; other site 272562007512 D-xylulose kinase; Region: XylB; TIGR01312 272562007513 active site 272562007514 catalytic site [active] 272562007515 metal binding site [ion binding]; metal-binding site 272562007516 xylulose binding site [chemical binding]; other site 272562007517 putative ATP binding site [chemical binding]; other site 272562007518 homodimer interface [polypeptide binding]; other site 272562007519 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 272562007520 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 272562007521 beta-phosphoglucomutase; Region: bPGM; TIGR01990 272562007522 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272562007523 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 272562007524 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 272562007525 dinuclear metal binding motif [ion binding]; other site 272562007526 manganese transport transcriptional regulator; Provisional; Region: PRK03902 272562007527 Helix-turn-helix domains; Region: HTH; cl00088 272562007528 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 272562007529 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 272562007530 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272562007531 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272562007532 Domain of Unknown Function with PDB structure (DUF3862); Region: DUF3862; pfam12978 272562007533 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 272562007534 active site 272562007535 catalytic triad [active] 272562007536 oxyanion hole [active] 272562007537 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 272562007538 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272562007539 Zn2+ binding site [ion binding]; other site 272562007540 Mg2+ binding site [ion binding]; other site 272562007541 Lyc muramidase is an autolytic lysozyme (autolysin) from Clostridium acetobutylicum encoded by the lyc gene. Lyc has a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan...; Region: GH25_Lyc-like; cd06525 272562007542 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 272562007543 active site 272562007544 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272562007545 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272562007546 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272562007547 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272562007548 substrate binding site [chemical binding]; other site 272562007549 activation loop (A-loop); other site 272562007550 Predicted ATPase [General function prediction only]; Region: COG3899 272562007551 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272562007552 metal binding site [ion binding]; metal-binding site 272562007553 active site 272562007554 I-site; other site 272562007555 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 272562007556 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 272562007557 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 272562007558 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272562007559 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 272562007560 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562007561 NAD(P) binding site [chemical binding]; other site 272562007562 active site 272562007563 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 272562007564 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 272562007565 active site 272562007566 putative substrate binding region [chemical binding]; other site 272562007567 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 272562007568 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272562007569 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 272562007570 ferric uptake regulator; Provisional; Region: fur; PRK09462 272562007571 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 272562007572 metal binding site 2 [ion binding]; metal-binding site 272562007573 putative DNA binding helix; other site 272562007574 metal binding site 1 [ion binding]; metal-binding site 272562007575 dimer interface [polypeptide binding]; other site 272562007576 structural Zn2+ binding site [ion binding]; other site 272562007577 Predicted GTPase [General function prediction only]; Region: COG0218 272562007578 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 272562007579 G1 box; other site 272562007580 GTP/Mg2+ binding site [chemical binding]; other site 272562007581 Switch I region; other site 272562007582 G2 box; other site 272562007583 G3 box; other site 272562007584 Switch II region; other site 272562007585 G4 box; other site 272562007586 G5 box; other site 272562007587 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 272562007588 Found in ATP-dependent protease La (LON); Region: LON; smart00464 272562007589 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 272562007590 Walker A motif; other site 272562007591 ATP binding site [chemical binding]; other site 272562007592 Walker B motif; other site 272562007593 arginine finger; other site 272562007594 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 272562007595 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 272562007596 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 272562007597 Walker A motif; other site 272562007598 ATP binding site [chemical binding]; other site 272562007599 Walker B motif; other site 272562007600 arginine finger; other site 272562007601 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 272562007602 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 272562007603 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 272562007604 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 272562007605 Walker A motif; other site 272562007606 ATP binding site [chemical binding]; other site 272562007607 Walker B motif; other site 272562007608 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 272562007609 Clp protease; Region: CLP_protease; pfam00574 272562007610 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 272562007611 oligomer interface [polypeptide binding]; other site 272562007612 active site residues [active] 272562007613 trigger factor; Provisional; Region: tig; PRK01490 272562007614 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 272562007615 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 272562007616 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 272562007617 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 272562007618 AP (apurinic/apyrimidinic) site pocket; other site 272562007619 DNA interaction; other site 272562007620 Metal-binding active site; metal-binding site 272562007621 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 272562007622 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272562007623 ATP-grasp domain; Region: ATP-grasp_4; cl03087 272562007624 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 272562007625 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272562007626 ATP-grasp domain; Region: ATP-grasp_4; cl03087 272562007627 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 272562007628 IMP binding site; other site 272562007629 dimer interface [polypeptide binding]; other site 272562007630 interdomain contacts; other site 272562007631 partial ornithine binding site; other site 272562007632 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 272562007633 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 272562007634 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 272562007635 catalytic site [active] 272562007636 subunit interface [polypeptide binding]; other site 272562007637 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 272562007638 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 272562007639 Catalytic site [active] 272562007640 Protein of unknown function (DUF975); Region: DUF975; cl10504 272562007641 Protein of unknown function (DUF975); Region: DUF975; cl10504 272562007642 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. 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...; Region: DHOD_1B_like; cd04740 272562007643 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 272562007644 heterodimer interface [polypeptide binding]; other site 272562007645 active site 272562007646 FMN binding site [chemical binding]; other site 272562007647 homodimer interface [polypeptide binding]; other site 272562007648 substrate binding site [chemical binding]; other site 272562007649 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 272562007650 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 272562007651 FAD binding pocket [chemical binding]; other site 272562007652 FAD binding motif [chemical binding]; other site 272562007653 phosphate binding motif [ion binding]; other site 272562007654 beta-alpha-beta structure motif; other site 272562007655 NAD binding pocket [chemical binding]; other site 272562007656 Iron coordination center [ion binding]; other site 272562007657 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 272562007658 active site 272562007659 dimer interface [polypeptide binding]; other site 272562007660 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 272562007661 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 272562007662 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 272562007663 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 272562007664 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 272562007665 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562007666 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 272562007667 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 272562007668 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272562007669 4Fe-4S binding domain; Region: Fer4; cl02805 272562007670 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 272562007671 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 272562007672 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 272562007673 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 272562007674 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 272562007675 PspC domain; Region: PspC; cl00864 272562007676 pyruvate carboxylase; Reviewed; Region: PRK12999 272562007677 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272562007678 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 272562007679 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 272562007680 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 272562007681 active site 272562007682 catalytic residues [active] 272562007683 metal binding site [ion binding]; metal-binding site 272562007684 homodimer binding site [polypeptide binding]; other site 272562007685 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 272562007686 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 272562007687 carboxyltransferase (CT) interaction site; other site 272562007688 biotinylation site [posttranslational modification]; other site 272562007689 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 272562007690 FtsX-like permease family; Region: FtsX; pfam02687 272562007691 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 272562007692 NlpC/P60 family; Region: NLPC_P60; cl11438 272562007693 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 272562007694 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272562007695 active site 272562007696 metal binding site [ion binding]; metal-binding site 272562007697 homotetramer interface [polypeptide binding]; other site 272562007698 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 272562007699 active site 272562007700 dimerization interface [polypeptide binding]; other site 272562007701 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 272562007702 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 272562007703 peptide binding site [polypeptide binding]; other site 272562007704 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 272562007705 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 272562007706 GatB domain; Region: GatB_Yqey; cl11497 272562007707 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 272562007708 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 272562007709 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 272562007710 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 272562007711 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 272562007712 nucleotide binding pocket [chemical binding]; other site 272562007713 K-X-D-G motif; other site 272562007714 catalytic site [active] 272562007715 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 272562007716 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 272562007717 Dimer interface [polypeptide binding]; other site 272562007718 BRCT sequence motif; other site 272562007719 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 272562007720 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562007721 Family description; Region: UvrD_C_2; cl15862 272562007722 Helix-turn-helix domains; Region: HTH; cl00088 272562007723 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 272562007724 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 272562007725 RNA binding surface [nucleotide binding]; other site 272562007726 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 272562007727 active site 272562007728 uracil binding [chemical binding]; other site 272562007729 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 272562007730 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272562007731 catalytic residue [active] 272562007732 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 272562007733 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 272562007734 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 272562007735 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 272562007736 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 272562007737 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 272562007738 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 272562007739 pullulanase, type I; Region: pulA_typeI; TIGR02104 272562007740 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 272562007741 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 272562007742 Ca binding site [ion binding]; other site 272562007743 active site 272562007744 catalytic site [active] 272562007745 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 272562007746 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 272562007747 active site 272562007748 dimer interface [polypeptide binding]; other site 272562007749 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 272562007750 dimer interface [polypeptide binding]; other site 272562007751 active site 272562007752 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 272562007753 Coat F domain; Region: Coat_F; cl15836 272562007754 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 272562007755 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 272562007756 substrate binding site [chemical binding]; other site 272562007757 ATP binding site [chemical binding]; other site 272562007758 maltose phosphorylase; Provisional; Region: PRK13807 272562007759 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 272562007760 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 272562007761 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 272562007762 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 272562007763 Alpha amylase catalytic domain found in eukaryotic and bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_euk_bac_CMD_like; cd11353 272562007764 active site 272562007765 catalytic site [active] 272562007766 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 272562007767 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 272562007768 ATP binding site [chemical binding]; other site 272562007769 putative Mg++ binding site [ion binding]; other site 272562007770 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 272562007771 nucleotide binding region [chemical binding]; other site 272562007772 ATP-binding site [chemical binding]; other site 272562007773 RQC domain; Region: RQC; cl09632 272562007774 HRDC domain; Region: HRDC; cl02578 272562007775 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 272562007776 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272562007777 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272562007778 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272562007779 NlpC/P60 family; Region: NLPC_P60; cl11438 272562007780 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272562007781 Helix-turn-helix domains; Region: HTH; cl00088 272562007782 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 272562007783 dimerization interface [polypeptide binding]; other site 272562007784 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 272562007785 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562007786 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 272562007787 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 272562007788 active site 272562007789 substrate binding site [chemical binding]; other site 272562007790 trimer interface [polypeptide binding]; other site 272562007791 CoA binding site [chemical binding]; other site 272562007792 Bacterial SH3 domain; Region: SH3_3; cl02551 272562007793 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 272562007794 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 272562007795 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272562007796 GMP synthase; Reviewed; Region: guaA; PRK00074 272562007797 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 272562007798 AMP/PPi binding site [chemical binding]; other site 272562007799 candidate oxyanion hole; other site 272562007800 catalytic triad [active] 272562007801 potential glutamine specificity residues [chemical binding]; other site 272562007802 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 272562007803 ATP Binding subdomain [chemical binding]; other site 272562007804 Ligand Binding sites [chemical binding]; other site 272562007805 Dimerization subdomain; other site 272562007806 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 272562007807 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 272562007808 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 272562007809 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 272562007810 active site 272562007811 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 272562007812 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 272562007813 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272562007814 metal binding site [ion binding]; metal-binding site 272562007815 active site 272562007816 I-site; other site 272562007817 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 272562007818 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 272562007819 ring oligomerisation interface [polypeptide binding]; other site 272562007820 ATP/Mg binding site [chemical binding]; other site 272562007821 stacking interactions; other site 272562007822 hinge regions; other site 272562007823 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 272562007824 oligomerisation interface [polypeptide binding]; other site 272562007825 mobile loop; other site 272562007826 roof hairpin; other site 272562007827 Protein of unknown function (DUF1461); Region: DUF1461; cl01862 272562007828 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 272562007829 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 272562007830 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 272562007831 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 272562007832 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 272562007833 minor groove reading motif; other site 272562007834 helix-hairpin-helix signature motif; other site 272562007835 substrate binding pocket [chemical binding]; other site 272562007836 active site 272562007837 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 272562007838 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562007839 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 272562007840 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 272562007841 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 272562007842 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 272562007843 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 272562007844 Ligand binding site [chemical binding]; other site 272562007845 Electron transfer flavoprotein domain; Region: ETF; pfam01012 272562007846 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 272562007847 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 272562007848 FAD binding site [chemical binding]; other site 272562007849 homotetramer interface [polypeptide binding]; other site 272562007850 substrate binding pocket [chemical binding]; other site 272562007851 catalytic base [active] 272562007852 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 272562007853 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 272562007854 substrate binding site [chemical binding]; other site 272562007855 oxyanion hole (OAH) forming residues; other site 272562007856 trimer interface [polypeptide binding]; other site 272562007857 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 272562007858 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 272562007859 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562007860 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 272562007861 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562007862 Walker A/P-loop; other site 272562007863 ATP binding site [chemical binding]; other site 272562007864 Q-loop/lid; other site 272562007865 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 272562007866 ABC transporter; Region: ABC_tran_2; pfam12848 272562007867 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 272562007868 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 272562007869 glycosyltransferase, MGT family; Region: MGT; TIGR01426 272562007870 active site 272562007871 TDP-binding site; other site 272562007872 acceptor substrate-binding pocket; other site 272562007873 homodimer interface [polypeptide binding]; other site 272562007874 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 272562007875 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 272562007876 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 272562007877 ethanolamine permease; Region: 2A0305; TIGR00908 272562007878 Amino acid permease; Region: AA_permease; cl00524 272562007879 Signal transduction histidine kinase; Region: H_kinase_N; pfam12282 272562007880 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 272562007881 Histidine kinase; Region: HisKA_2; cl06527 272562007882 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 272562007883 ATP binding site [chemical binding]; other site 272562007884 Mg2+ binding site [ion binding]; other site 272562007885 G-X-G motif; other site 272562007886 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 272562007887 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 272562007888 active site 272562007889 phosphorylation site [posttranslational modification] 272562007890 intermolecular recognition site; other site 272562007891 dimerization interface [polypeptide binding]; other site 272562007892 ANTAR domain; Region: ANTAR; cl04297 272562007893 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 272562007894 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 272562007895 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 272562007896 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 272562007897 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 272562007898 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 272562007899 dipeptidase PepV; Reviewed; Region: PRK07318 272562007900 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 272562007901 active site 272562007902 metal binding site [ion binding]; metal-binding site 272562007903 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 272562007904 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272562007905 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 272562007906 histidinol-phosphatase; Provisional; Region: PRK05588 272562007907 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 272562007908 Bacterial SH3 domain; Region: SH3_3; cl02551 272562007909 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 272562007910 dimer interface [polypeptide binding]; other site 272562007911 phosphorylation site [posttranslational modification] 272562007912 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 272562007913 ATP binding site [chemical binding]; other site 272562007914 Mg2+ binding site [ion binding]; other site 272562007915 G-X-G motif; other site 272562007916 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272562007917 FtsX-like permease family; Region: FtsX; cl15850 272562007918 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 272562007919 FtsX-like permease family; Region: FtsX; cl15850 272562007920 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272562007921 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 272562007922 Walker A/P-loop; other site 272562007923 ATP binding site [chemical binding]; other site 272562007924 Q-loop/lid; other site 272562007925 ABC transporter signature motif; other site 272562007926 Walker B; other site 272562007927 D-loop; other site 272562007928 H-loop/switch region; other site 272562007929 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272562007930 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 272562007931 The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme...; Region: ABC_BcrA_bacitracin_resist; cd03268 272562007932 Walker A/P-loop; other site 272562007933 ATP binding site [chemical binding]; other site 272562007934 Q-loop/lid; other site 272562007935 ABC transporter signature motif; other site 272562007936 Walker B; other site 272562007937 D-loop; other site 272562007938 H-loop/switch region; other site 272562007939 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272562007940 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 272562007941 active site 272562007942 phosphorylation site [posttranslational modification] 272562007943 intermolecular recognition site; other site 272562007944 dimerization interface [polypeptide binding]; other site 272562007945 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 272562007946 DNA binding site [nucleotide binding] 272562007947 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 272562007948 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 272562007949 Walker A/P-loop; other site 272562007950 ATP binding site [chemical binding]; other site 272562007951 Q-loop/lid; other site 272562007952 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 272562007953 Cytochrome P450; Region: p450; cl12078 272562007954 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 272562007955 ABC transporter signature motif; other site 272562007956 Walker B; other site 272562007957 D-loop; other site 272562007958 H-loop/switch region; other site 272562007959 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272562007960 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 272562007961 active site 272562007962 metal binding site [ion binding]; metal-binding site 272562007963 DNA binding site [nucleotide binding] 272562007964 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 272562007965 Protein of unknown function DUF124; Region: DUF124; cl00884 272562007966 Predicted acetyltransferase [General function prediction only]; Region: COG3981 272562007967 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272562007968 Coenzyme A binding pocket [chemical binding]; other site 272562007969 histidyl-tRNA synthetase; Region: hisS; TIGR00442 272562007970 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 272562007971 dimer interface [polypeptide binding]; other site 272562007972 motif 1; other site 272562007973 active site 272562007974 motif 2; other site 272562007975 motif 3; other site 272562007976 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 272562007977 anticodon binding site; other site 272562007978 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 272562007979 catalytic core [active] 272562007980 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 272562007981 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 272562007982 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 272562007983 putative substrate translocation pore; other site 272562007984 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 272562007985 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272562007986 dimer interface [polypeptide binding]; other site 272562007987 putative CheW interface [polypeptide binding]; other site 272562007988 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 272562007989 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272562007990 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272562007991 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272562007992 dimer interface [polypeptide binding]; other site 272562007993 putative CheW interface [polypeptide binding]; other site 272562007994 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 272562007995 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 272562007996 putative peptidoglycan binding site; other site 272562007997 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 272562007998 putative peptidoglycan binding site; other site 272562007999 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 272562008000 active site 272562008001 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 272562008002 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 272562008003 ATP binding site [chemical binding]; other site 272562008004 Mg++ binding site [ion binding]; other site 272562008005 motif III; other site 272562008006 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 272562008007 nucleotide binding region [chemical binding]; other site 272562008008 ATP-binding site [chemical binding]; other site 272562008009 DbpA RNA binding domain; Region: DbpA; pfam03880 272562008010 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 272562008011 active site 272562008012 metal binding site [ion binding]; metal-binding site 272562008013 homotetramer interface [polypeptide binding]; other site 272562008014 hybrid cluster protein; Provisional; Region: PRK05290 272562008015 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 272562008016 ACS interaction site; other site 272562008017 CODH interaction site; other site 272562008018 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 272562008019 hybrid metal cluster; other site 272562008020 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272562008021 Predicted membrane protein [Function unknown]; Region: COG4684 272562008022 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 272562008023 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272562008024 putative substrate translocation pore; other site 272562008025 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272562008026 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272562008027 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562008028 Walker A/P-loop; other site 272562008029 ATP binding site [chemical binding]; other site 272562008030 Q-loop/lid; other site 272562008031 ABC transporter signature motif; other site 272562008032 Walker B; other site 272562008033 D-loop; other site 272562008034 H-loop/switch region; other site 272562008035 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272562008036 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272562008037 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 272562008038 Walker A/P-loop; other site 272562008039 ATP binding site [chemical binding]; other site 272562008040 Q-loop/lid; other site 272562008041 ABC transporter signature motif; other site 272562008042 Walker B; other site 272562008043 D-loop; other site 272562008044 H-loop/switch region; other site 272562008045 Predicted secreted protein [Function unknown]; Region: COG4086 272562008046 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272562008047 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 272562008048 active site 272562008049 phosphorylation site [posttranslational modification] 272562008050 intermolecular recognition site; other site 272562008051 dimerization interface [polypeptide binding]; other site 272562008052 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 272562008053 DNA binding site [nucleotide binding] 272562008054 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 272562008055 dimerization interface [polypeptide binding]; other site 272562008056 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 272562008057 dimer interface [polypeptide binding]; other site 272562008058 phosphorylation site [posttranslational modification] 272562008059 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 272562008060 ATP binding site [chemical binding]; other site 272562008061 Mg2+ binding site [ion binding]; other site 272562008062 G-X-G motif; other site 272562008063 ApbE family; Region: ApbE; cl00643 272562008064 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 272562008065 4Fe-4S binding domain; Region: Fer4_5; pfam12801 272562008066 4Fe-4S binding domain; Region: Fer4_5; pfam12801 272562008067 FMN-binding domain; Region: FMN_bind; cl01081 272562008068 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 272562008069 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 272562008070 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 272562008071 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272562008072 dimer interface [polypeptide binding]; other site 272562008073 putative CheW interface [polypeptide binding]; other site 272562008074 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 272562008075 ApbE family; Region: ApbE; cl00643 272562008076 FMN-binding domain; Region: FMN_bind; cl01081 272562008077 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272562008078 Helix-turn-helix domains; Region: HTH; cl00088 272562008079 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 272562008080 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 272562008081 active site 272562008082 Amino acid permease; Region: AA_permease; cl00524 272562008083 amino acid transporter; Region: 2A0306; TIGR00909 272562008084 Spore germination protein; Region: Spore_permease; cl15802 272562008085 Permease family; Region: Xan_ur_permease; cl00967 272562008086 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272562008087 Helix-turn-helix domains; Region: HTH; cl00088 272562008088 Cache domain; Region: Cache_2; cl07034 272562008089 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 272562008090 dimerization interface [polypeptide binding]; other site 272562008091 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272562008092 dimer interface [polypeptide binding]; other site 272562008093 putative CheW interface [polypeptide binding]; other site 272562008094 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 272562008095 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272562008096 putative active site [active] 272562008097 putative metal binding site [ion binding]; other site 272562008098 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 272562008099 catalytic residues [active] 272562008100 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 272562008101 Rubredoxin; Region: Rubredoxin; pfam00301 272562008102 iron binding site [ion binding]; other site 272562008103 Coat F domain; Region: Coat_F; cl15836 272562008104 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 272562008105 EamA-like transporter family; Region: EamA; cl01037 272562008106 EamA-like transporter family; Region: EamA; cl01037 272562008107 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 272562008108 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 272562008109 homodimer interface [polypeptide binding]; other site 272562008110 substrate-cofactor binding pocket; other site 272562008111 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562008112 catalytic residue [active] 272562008113 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 272562008114 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 272562008115 Domain of unknown function DUF77; Region: DUF77; cl00307 272562008116 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 272562008117 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272562008118 active site 272562008119 metal binding site [ion binding]; metal-binding site 272562008120 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 272562008121 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 272562008122 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 272562008123 active site 272562008124 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 272562008125 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 272562008126 FeS/SAM binding site; other site 272562008127 RDD family; Region: RDD; cl00746 272562008128 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272562008129 Helix-turn-helix domains; Region: HTH; cl00088 272562008130 Helix-turn-helix domains; Region: HTH; cl00088 272562008131 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 272562008132 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 272562008133 FeS/SAM binding site; other site 272562008134 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 272562008135 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 272562008136 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 272562008137 FeS/SAM binding site; other site 272562008138 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 272562008139 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 272562008140 active site 272562008141 FMN binding site [chemical binding]; other site 272562008142 substrate binding site [chemical binding]; other site 272562008143 putative catalytic residue [active] 272562008144 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 272562008145 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 272562008146 dimanganese center [ion binding]; other site 272562008147 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 272562008148 TPR motif; other site 272562008149 binding surface 272562008150 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 272562008151 Sulfatase; Region: Sulfatase; cl10460 272562008152 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 272562008153 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272562008154 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272562008155 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272562008156 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 272562008157 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 272562008158 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272562008159 catalytic residue [active] 272562008160 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 272562008161 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272562008162 putative active site [active] 272562008163 putative metal binding site [ion binding]; other site 272562008164 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 272562008165 lichenase, member of glycosyl hydrolase family 16; Region: GH16_lichenase; cd02175 272562008166 active site 272562008167 active site 272562008168 catalytic residues [active] 272562008169 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272562008170 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272562008171 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 272562008172 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 272562008173 active site 272562008174 Int/Topo IB signature motif; other site 272562008175 Cupin domain; Region: Cupin_2; cl09118 272562008176 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 272562008177 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 272562008178 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 272562008179 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272562008180 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272562008181 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 272562008182 Cache domain; Region: Cache_1; pfam02743 272562008183 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 272562008184 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 272562008185 dimerization interface [polypeptide binding]; other site 272562008186 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272562008187 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 272562008188 binding surface 272562008189 TPR motif; other site 272562008190 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 272562008191 binding surface 272562008192 TPR motif; other site 272562008193 Uncharacterized conserved protein [Function unknown]; Region: COG4997 272562008194 Predicted HKD family nuclease [DNA replication, recombination, and repair]; Region: COG3886 272562008195 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b3; cd09205 272562008196 putative homodimer interface [polypeptide binding]; other site 272562008197 putative active site [active] 272562008198 catalytic site [active] 272562008199 DEAD-like helicases superfamily; Region: DEXDc; smart00487 272562008200 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 272562008201 ATP binding site [chemical binding]; other site 272562008202 putative Mg++ binding site [ion binding]; other site 272562008203 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 272562008204 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 272562008205 nucleotide binding region [chemical binding]; other site 272562008206 ATP-binding site [chemical binding]; other site 272562008207 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 272562008208 DJ-1 family protein; Region: not_thiJ; TIGR01383 272562008209 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 272562008210 conserved cys residue [active] 272562008211 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 272562008212 S-adenosylmethionine binding site [chemical binding]; other site 272562008213 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 272562008214 active site 272562008215 8-oxo-dGMP binding site [chemical binding]; other site 272562008216 nudix motif; other site 272562008217 metal binding site [ion binding]; metal-binding site 272562008218 Acylphosphatase; Region: Acylphosphatase; cl00551 272562008219 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 272562008220 aspartate aminotransferase; Provisional; Region: PRK06836 272562008221 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 272562008222 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562008223 homodimer interface [polypeptide binding]; other site 272562008224 catalytic residue [active] 272562008225 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 272562008226 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 272562008227 Glycerate kinase family; Region: Gly_kinase; cl00841 272562008228 GntP family permease; Region: GntP_permease; cl15264 272562008229 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 272562008230 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 272562008231 intersubunit interface [polypeptide binding]; other site 272562008232 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272562008233 Zn2+ binding site [ion binding]; other site 272562008234 Mg2+ binding site [ion binding]; other site 272562008235 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272562008236 Zn2+ binding site [ion binding]; other site 272562008237 Mg2+ binding site [ion binding]; other site 272562008238 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 272562008239 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 272562008240 Glycoprotease family; Region: Peptidase_M22; pfam00814 272562008241 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 272562008242 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272562008243 Coenzyme A binding pocket [chemical binding]; other site 272562008244 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 272562008245 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 272562008246 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 272562008247 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 272562008248 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 272562008249 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 272562008250 RNA binding site [nucleotide binding]; other site 272562008251 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 272562008252 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 272562008253 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 272562008254 metal binding site [ion binding]; metal-binding site 272562008255 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 272562008256 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 272562008257 dimer interface [polypeptide binding]; other site 272562008258 active site 272562008259 peptide chain release factor 2; Provisional; Region: PRK05589 272562008260 RF-1 domain; Region: RF-1; cl02875 272562008261 RF-1 domain; Region: RF-1; cl02875 272562008262 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 272562008263 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562008264 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 272562008265 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 272562008266 nucleotide binding region [chemical binding]; other site 272562008267 ATP-binding site [chemical binding]; other site 272562008268 SEC-C motif; Region: SEC-C; pfam02810 272562008269 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 272562008270 30S subunit binding site; other site 272562008271 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 272562008272 dimer interface [polypeptide binding]; other site 272562008273 conserved gate region; other site 272562008274 putative PBP binding loops; other site 272562008275 ABC-ATPase subunit interface; other site 272562008276 NMT1-like family; Region: NMT1_2; cl15260 272562008277 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 272562008278 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 272562008279 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of...; Region: ABC_OpuCA_Osmoprotection; cd03295 272562008280 Walker A/P-loop; other site 272562008281 ATP binding site [chemical binding]; other site 272562008282 Q-loop/lid; other site 272562008283 ABC transporter signature motif; other site 272562008284 Walker B; other site 272562008285 D-loop; other site 272562008286 H-loop/switch region; other site 272562008287 FOG: CBS domain [General function prediction only]; Region: COG0517 272562008288 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 272562008289 Predicted transcriptional regulators [Transcription]; Region: COG1725 272562008290 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272562008291 DNA-binding site [nucleotide binding]; DNA binding site 272562008292 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; cl15357 272562008293 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 272562008294 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272562008295 active site 272562008296 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 272562008297 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 272562008298 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562008299 Family description; Region: UvrD_C_2; cl15862 272562008300 S-adenosylmethionine synthetase; Validated; Region: PRK05250 272562008301 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 272562008302 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 272562008303 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 272562008304 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 272562008305 rod shape-determining protein Mbl; Provisional; Region: PRK13928 272562008306 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 272562008307 ATP binding site [chemical binding]; other site 272562008308 profilin binding site; other site 272562008309 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272562008310 methionine aminopeptidase 2; Provisional; Region: PTZ00053 272562008311 Peptidase family M23; Region: Peptidase_M23; pfam01551 272562008312 stage II sporulation protein D; Region: spore_II_D; TIGR02870 272562008313 Stage II sporulation protein; Region: SpoIID; pfam08486 272562008314 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 272562008315 hinge; other site 272562008316 active site 272562008317 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 272562008318 Protein of unknown function (DUF1779); Region: DUF1779; pfam08680 272562008319 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13450 272562008320 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 272562008321 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 272562008322 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 272562008323 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 272562008324 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 272562008325 alpha subunit interaction interface [polypeptide binding]; other site 272562008326 Walker A motif; other site 272562008327 ATP binding site [chemical binding]; other site 272562008328 Walker B motif; other site 272562008329 inhibitor binding site; inhibition site 272562008330 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 272562008331 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; cl00365 272562008332 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 272562008333 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 272562008334 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 272562008335 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 272562008336 beta subunit interaction interface [polypeptide binding]; other site 272562008337 Walker A motif; other site 272562008338 ATP binding site [chemical binding]; other site 272562008339 Walker B motif; other site 272562008340 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 272562008341 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl15360 272562008342 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 272562008343 Mitochondrial ATP synthase B chain precursor (ATP-synt_B); Region: Mt_ATP-synt_B; cl07975 272562008344 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 272562008345 ATP synthase subunit C; Region: ATP-synt_C; cl00466 272562008346 ATP synthase A chain; Region: ATP-synt_A; cl00413 272562008347 putative acyltransferase; Provisional; Region: PRK05790 272562008348 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 272562008349 dimer interface [polypeptide binding]; other site 272562008350 active site 272562008351 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 272562008352 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 272562008353 active site 272562008354 homodimer interface [polypeptide binding]; other site 272562008355 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 272562008356 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 272562008357 Mg++ binding site [ion binding]; other site 272562008358 putative catalytic motif [active] 272562008359 substrate binding site [chemical binding]; other site 272562008360 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 272562008361 catalytic motif [active] 272562008362 Zn binding site [ion binding]; other site 272562008363 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 272562008364 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 272562008365 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 272562008366 ABC-ATPase subunit interface; other site 272562008367 dimer interface [polypeptide binding]; other site 272562008368 putative PBP binding regions; other site 272562008369 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272562008370 active site 272562008371 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 272562008372 Low molecular weight phosphatase family; Region: LMWPc; cd00115 272562008373 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 272562008374 active site 272562008375 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 272562008376 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 272562008377 peptide chain release factor 1; Validated; Region: prfA; PRK00591 272562008378 RF-1 domain; Region: RF-1; cl02875 272562008379 RF-1 domain; Region: RF-1; cl02875 272562008380 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 272562008381 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 272562008382 S-adenosylmethionine binding site [chemical binding]; other site 272562008383 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 272562008384 thymidine kinase; Provisional; Region: PRK04296 272562008385 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 272562008386 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 272562008387 transcription termination factor Rho; Provisional; Region: PRK12608 272562008388 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 272562008389 RNA binding site [nucleotide binding]; other site 272562008390 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 272562008391 multimer interface [polypeptide binding]; other site 272562008392 Walker A motif; other site 272562008393 ATP binding site [chemical binding]; other site 272562008394 Walker B motif; other site 272562008395 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 272562008396 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 272562008397 active site 272562008398 catalytic site [active] 272562008399 CTP synthetase; Validated; Region: pyrG; PRK05380 272562008400 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 272562008401 Catalytic site [active] 272562008402 active site 272562008403 UTP binding site [chemical binding]; other site 272562008404 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 272562008405 active site 272562008406 putative oxyanion hole; other site 272562008407 catalytic triad [active] 272562008408 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 272562008409 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 272562008410 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 272562008411 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 272562008412 germination protein YpeB; Region: spore_YpeB; TIGR02889 272562008413 UDP-N-acetylglucosamine:LPS N-acetylglucosamine transferase [Cell envelope biogenesis, outer membrane]; Region: MurG; COG0707 272562008414 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 272562008415 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 272562008416 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; cl09775 272562008417 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 272562008418 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 272562008419 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 272562008420 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 272562008421 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 272562008422 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 272562008423 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 272562008424 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 272562008425 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 272562008426 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 272562008427 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 272562008428 putative peptidoglycan binding site; other site 272562008429 Protein of unknown function (DUF1021); Region: DUF1021; cl01852 272562008430 YabG peptidase U57; Region: Peptidase_U57; cl05250 272562008431 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 272562008432 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 272562008433 substrate binding site [chemical binding]; other site 272562008434 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 272562008435 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 272562008436 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 272562008437 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 272562008438 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272562008439 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 272562008440 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 272562008441 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cl15691 272562008442 substrate binding site [chemical binding]; other site 272562008443 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272562008444 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 272562008445 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272562008446 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 272562008447 oligomerization interface [polypeptide binding]; other site 272562008448 active site 272562008449 metal binding site [ion binding]; metal-binding site 272562008450 pantoate--beta-alanine ligase; Reviewed; Region: panC; PRK00380 272562008451 Pantoate-beta-alanine ligase; Region: PanC; cd00560 272562008452 active site 272562008453 ATP-binding site [chemical binding]; other site 272562008454 pantoate-binding site; other site 272562008455 HXXH motif; other site 272562008456 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 272562008457 tetramerization interface [polypeptide binding]; other site 272562008458 active site 272562008459 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 272562008460 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272562008461 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 272562008462 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 272562008463 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 272562008464 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 272562008465 thiamine phosphate binding site [chemical binding]; other site 272562008466 active site 272562008467 pyrophosphate binding site [ion binding]; other site 272562008468 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 272562008469 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 272562008470 FeS/SAM binding site; other site 272562008471 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 272562008472 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 272562008473 ThiS interaction site; other site 272562008474 putative active site [active] 272562008475 tetramer interface [polypeptide binding]; other site 272562008476 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 272562008477 E1_ThiF_like. Member of superfamily of activating enzymes (E1) of the ubiquitin-like proteins. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like substrate, on...; Region: E1_ThiF_like; cd01487 272562008478 putative ATP binding site [chemical binding]; other site 272562008479 putative substrate interface [chemical binding]; other site 272562008480 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 272562008481 thiS-thiF/thiG interaction site; other site 272562008482 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272562008483 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 272562008484 dihydropteroate synthase; Region: DHPS; TIGR01496 272562008485 substrate binding pocket [chemical binding]; other site 272562008486 dimer interface [polypeptide binding]; other site 272562008487 inhibitor binding site; inhibition site 272562008488 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 272562008489 homooctamer interface [polypeptide binding]; other site 272562008490 active site 272562008491 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 272562008492 catalytic center binding site [active] 272562008493 ATP binding site [chemical binding]; other site 272562008494 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 272562008495 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 272562008496 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 272562008497 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272562008498 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 272562008499 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 272562008500 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272562008501 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562008502 Walker A/P-loop; other site 272562008503 ATP binding site [chemical binding]; other site 272562008504 Q-loop/lid; other site 272562008505 ABC transporter signature motif; other site 272562008506 Walker B; other site 272562008507 D-loop; other site 272562008508 H-loop/switch region; other site 272562008509 4Fe-4S binding domain; Region: Fer4; cl02805 272562008510 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 272562008511 putative oxidoreductase; Provisional; Region: PRK13984 272562008512 4Fe-4S binding domain; Region: Fer4; cl02805 272562008513 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 272562008514 putative FMN binding site [chemical binding]; other site 272562008515 Helix-turn-helix domains; Region: HTH; cl00088 272562008516 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 272562008517 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272562008518 Coenzyme A binding pocket [chemical binding]; other site 272562008519 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272562008520 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562008521 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 272562008522 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 272562008523 Uncharacterized protein involved in plasmid maintenance [General function prediction only]; Region: SMP2; COG5083 272562008524 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272562008525 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272562008526 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 272562008527 active site 272562008528 phosphorylation site [posttranslational modification] 272562008529 intermolecular recognition site; other site 272562008530 dimerization interface [polypeptide binding]; other site 272562008531 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 272562008532 DNA binding residues [nucleotide binding] 272562008533 dimerization interface [polypeptide binding]; other site 272562008534 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 272562008535 Histidine kinase; Region: HisKA_3; pfam07730 272562008536 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 272562008537 ATP binding site [chemical binding]; other site 272562008538 Mg2+ binding site [ion binding]; other site 272562008539 G-X-G motif; other site 272562008540 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 272562008541 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 272562008542 active site 272562008543 motif I; other site 272562008544 motif II; other site 272562008545 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272562008546 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 272562008547 NlpC/P60 family; Region: NLPC_P60; cl11438 272562008548 Family description; Region: VCBS; pfam13517 272562008549 Family description; Region: VCBS; pfam13517 272562008550 Family description; Region: VCBS; pfam13517 272562008551 Family description; Region: VCBS; pfam13517 272562008552 Family description; Region: VCBS; pfam13517 272562008553 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 272562008554 NlpC/P60 family; Region: NLPC_P60; cl11438 272562008555 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 272562008556 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562008557 DNA topoisomerase III; Provisional; Region: PRK07726 272562008558 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 272562008559 active site 272562008560 putative interdomain interaction site [polypeptide binding]; other site 272562008561 putative metal-binding site [ion binding]; other site 272562008562 putative nucleotide binding site [chemical binding]; other site 272562008563 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 272562008564 domain I; other site 272562008565 DNA binding groove [nucleotide binding] 272562008566 phosphate binding site [ion binding]; other site 272562008567 domain II; other site 272562008568 domain III; other site 272562008569 nucleotide binding site [chemical binding]; other site 272562008570 catalytic site [active] 272562008571 domain IV; other site 272562008572 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 272562008573 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 272562008574 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562008575 Walker A/P-loop; other site 272562008576 ATP binding site [chemical binding]; other site 272562008577 Q-loop/lid; other site 272562008578 ABC transporter signature motif; other site 272562008579 Walker B; other site 272562008580 D-loop; other site 272562008581 H-loop/switch region; other site 272562008582 ABC transporter; Region: ABC_tran_2; pfam12848 272562008583 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 272562008584 Membrane transport protein; Region: Mem_trans; cl09117 272562008585 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 272562008586 Helix-turn-helix domains; Region: HTH; cl00088 272562008587 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 272562008588 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 272562008589 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 272562008590 putative substrate binding site [chemical binding]; other site 272562008591 putative ATP binding site [chemical binding]; other site 272562008592 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 272562008593 hypothetical protein; Provisional; Region: PRK08185 272562008594 intersubunit interface [polypeptide binding]; other site 272562008595 active site 272562008596 zinc binding site [ion binding]; other site 272562008597 Na+ binding site [ion binding]; other site 272562008598 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 272562008599 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 272562008600 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 272562008601 Helix-turn-helix domains; Region: HTH; cl00088 272562008602 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 272562008603 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 272562008604 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 272562008605 P-loop; other site 272562008606 active site 272562008607 phosphorylation site [posttranslational modification] 272562008608 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 272562008609 active site 272562008610 phosphorylation site [posttranslational modification] 272562008611 galactokinase; Provisional; Region: PRK05322 272562008612 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 272562008613 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 272562008614 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 272562008615 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 272562008616 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 272562008617 NAD binding site [chemical binding]; other site 272562008618 homodimer interface [polypeptide binding]; other site 272562008619 active site 272562008620 substrate binding site [chemical binding]; other site 272562008621 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 272562008622 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 272562008623 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 272562008624 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272562008625 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272562008626 DNA binding site [nucleotide binding] 272562008627 domain linker motif; other site 272562008628 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 272562008629 dimerization interface [polypeptide binding]; other site 272562008630 ligand binding site [chemical binding]; other site 272562008631 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 272562008632 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 272562008633 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 272562008634 PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two...; Region: PTS_IIB_lactose; cd05565 272562008635 P-loop; other site 272562008636 active site 272562008637 phosphorylation site [posttranslational modification] 272562008638 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 272562008639 methionine cluster; other site 272562008640 active site 272562008641 phosphorylation site [posttranslational modification] 272562008642 metal binding site [ion binding]; metal-binding site 272562008643 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 272562008644 Helix-turn-helix domains; Region: HTH; cl00088 272562008645 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 272562008646 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 272562008647 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 272562008648 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 272562008649 Substrate binding site; other site 272562008650 Cupin domain; Region: Cupin_2; cl09118 272562008651 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 272562008652 active site 272562008653 DNA binding site [nucleotide binding] 272562008654 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 272562008655 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 272562008656 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562008657 homodimer interface [polypeptide binding]; other site 272562008658 catalytic residue [active] 272562008659 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 272562008660 THUMP domain; Region: THUMP; cl12076 272562008661 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 272562008662 Ligand Binding Site [chemical binding]; other site 272562008663 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 272562008664 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 272562008665 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272562008666 catalytic residue [active] 272562008667 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 272562008668 Entner-Doudoroff aldolase; Region: eda; TIGR01182 272562008669 active site 272562008670 intersubunit interface [polypeptide binding]; other site 272562008671 catalytic residue [active] 272562008672 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 272562008673 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 272562008674 Peptidase family U32; Region: Peptidase_U32; cl03113 272562008675 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 272562008676 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 272562008677 GatB domain; Region: GatB_Yqey; cl11497 272562008678 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 272562008679 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 272562008680 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 272562008681 aspartyl-tRNA synthetase; Provisional; Region: aspC; PRK05159 272562008682 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 272562008683 Dimer interface [polypeptide binding]; other site 272562008684 anticodon binding site; other site 272562008685 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 272562008686 homodimer interface [polypeptide binding]; other site 272562008687 motif 1; other site 272562008688 motif 2; other site 272562008689 active site 272562008690 motif 3; other site 272562008691 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 272562008692 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 272562008693 active site 272562008694 Substrate binding site; other site 272562008695 Mg++ binding site; other site 272562008696 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 272562008697 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 272562008698 putative trimer interface [polypeptide binding]; other site 272562008699 putative CoA binding site [chemical binding]; other site 272562008700 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 272562008701 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 272562008702 active site 272562008703 substrate binding site [chemical binding]; other site 272562008704 metal binding site [ion binding]; metal-binding site 272562008705 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 272562008706 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 272562008707 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 272562008708 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 272562008709 putative active site [active] 272562008710 putative metal binding site [ion binding]; other site 272562008711 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 272562008712 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 272562008713 Domain of unknown function (DUF348); Region: DUF348; pfam03990 272562008714 Domain of unknown function (DUF348); Region: DUF348; pfam03990 272562008715 G5 domain; Region: G5; pfam07501 272562008716 3D domain; Region: 3D; cl01439 272562008717 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 272562008718 active site 272562008719 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 272562008720 DNA-binding site [nucleotide binding]; DNA binding site 272562008721 RNA-binding motif; other site 272562008722 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 272562008723 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 272562008724 active site 272562008725 HIGH motif; other site 272562008726 KMSKS motif; other site 272562008727 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 272562008728 tRNA binding surface [nucleotide binding]; other site 272562008729 anticodon binding site; other site 272562008730 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 272562008731 putative tRNA-binding site [nucleotide binding]; other site 272562008732 dimer interface [polypeptide binding]; other site 272562008733 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 272562008734 classical (c) SDRs; Region: SDR_c; cd05233 272562008735 NAD(P) binding site [chemical binding]; other site 272562008736 active site 272562008737 Domain of unknown function (DUF4356); Region: DUF4356; pfam14266 272562008738 Uncharacterized protein involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TelA; COG3853 272562008739 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 272562008740 HPr interaction site; other site 272562008741 glycerol kinase (GK) interaction site [polypeptide binding]; other site 272562008742 active site 272562008743 phosphorylation site [posttranslational modification] 272562008744 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 272562008745 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 272562008746 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 272562008747 ATP binding site [chemical binding]; other site 272562008748 putative Mg++ binding site [ion binding]; other site 272562008749 Hef nuclease; Provisional; Region: PRK13766 272562008750 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 272562008751 nucleotide binding region [chemical binding]; other site 272562008752 ATP-binding site [chemical binding]; other site 272562008753 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 272562008754 Fe-S cluster binding site [ion binding]; other site 272562008755 active site 272562008756 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 272562008757 binding surface 272562008758 TPR motif; other site 272562008759 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 272562008760 binding surface 272562008761 TPR motif; other site 272562008762 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 272562008763 binding surface 272562008764 TPR motif; other site 272562008765 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3877 272562008766 Helix-turn-helix domains; Region: HTH; cl00088 272562008767 Uncharacterized conserved protein [Function unknown]; Region: COG1633 272562008768 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 272562008769 dinuclear metal binding motif [ion binding]; other site 272562008770 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 272562008771 dimerization interface [polypeptide binding]; other site 272562008772 active site 272562008773 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 272562008774 folate binding site [chemical binding]; other site 272562008775 NADP+ binding site [chemical binding]; other site 272562008776 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 272562008777 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 272562008778 active site 272562008779 purine riboside binding site [chemical binding]; other site 272562008780 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 272562008781 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 272562008782 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 272562008783 Peptidase M16C associated; Region: M16C_assoc; pfam08367 272562008784 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 272562008785 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272562008786 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 272562008787 ABC transporter; Region: ABC_tran_2; pfam12848 272562008788 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 272562008789 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272562008790 FOG: CBS domain [General function prediction only]; Region: COG0517 272562008791 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_30; cd04643 272562008792 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 272562008793 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 272562008794 NodB motif; other site 272562008795 active site 272562008796 catalytic site [active] 272562008797 Cd binding site [ion binding]; other site 272562008798 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 272562008799 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 272562008800 ATP binding site [chemical binding]; other site 272562008801 Mg++ binding site [ion binding]; other site 272562008802 motif III; other site 272562008803 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 272562008804 nucleotide binding region [chemical binding]; other site 272562008805 ATP-binding site [chemical binding]; other site 272562008806 DbpA RNA binding domain; Region: DbpA; pfam03880 272562008807 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 272562008808 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562008809 Walker A/P-loop; other site 272562008810 ATP binding site [chemical binding]; other site 272562008811 Q-loop/lid; other site 272562008812 ABC transporter signature motif; other site 272562008813 Walker B; other site 272562008814 D-loop; other site 272562008815 H-loop/switch region; other site 272562008816 ABC transporter; Region: ABC_tran_2; pfam12848 272562008817 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 272562008818 Uncharacterized conserved protein (DUF2161); Region: DUF2161; cl02298 272562008819 ThiC family; Region: ThiC; cl08031 272562008820 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 272562008821 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 272562008822 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 272562008823 NodB motif; other site 272562008824 active site 272562008825 catalytic site [active] 272562008826 Zn binding site [ion binding]; other site 272562008827 Rubrerythrin [Energy production and conversion]; Region: COG1592 272562008828 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 272562008829 binuclear metal center [ion binding]; other site 272562008830 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 272562008831 iron binding site [ion binding]; other site 272562008832 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272562008833 metal binding site [ion binding]; metal-binding site 272562008834 active site 272562008835 I-site; other site 272562008836 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 272562008837 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 272562008838 heterotetramer interface [polypeptide binding]; other site 272562008839 active site pocket [active] 272562008840 cleavage site 272562008841 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 272562008842 catalytic core [active] 272562008843 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 272562008844 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_YpmR_like; cd04506 272562008845 active site 272562008846 catalytic triad [active] 272562008847 oxyanion hole [active] 272562008848 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 272562008849 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272562008850 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272562008851 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562008852 Walker A/P-loop; other site 272562008853 ATP binding site [chemical binding]; other site 272562008854 Q-loop/lid; other site 272562008855 ABC transporter signature motif; other site 272562008856 Walker B; other site 272562008857 D-loop; other site 272562008858 H-loop/switch region; other site 272562008859 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 272562008860 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272562008861 putative active site [active] 272562008862 putative metal binding site [ion binding]; other site 272562008863 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 272562008864 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 272562008865 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 272562008866 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 272562008867 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562008868 homodimer interface [polypeptide binding]; other site 272562008869 catalytic residue [active] 272562008870 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 272562008871 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 272562008872 active site 272562008873 catalytic residues [active] 272562008874 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 272562008875 3D domain; Region: 3D; cl01439 272562008876 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 272562008877 MutS-like homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess...; Region: ABC_MutS-like; cd03283 272562008878 Walker A/P-loop; other site 272562008879 ATP binding site [chemical binding]; other site 272562008880 Q-loop/lid; other site 272562008881 ABC transporter signature motif; other site 272562008882 Walker B; other site 272562008883 D-loop; other site 272562008884 H-loop/switch region; other site 272562008885 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 272562008886 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 272562008887 active site 272562008888 motif I; other site 272562008889 motif II; other site 272562008890 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 272562008891 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562008892 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 272562008893 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 272562008894 putative active site [active] 272562008895 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272562008896 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272562008897 DNA binding site [nucleotide binding] 272562008898 domain linker motif; other site 272562008899 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 272562008900 dimerization interface [polypeptide binding]; other site 272562008901 ligand binding site [chemical binding]; other site 272562008902 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 272562008903 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 272562008904 HIGH motif; other site 272562008905 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 272562008906 active site 272562008907 KMSKS motif; other site 272562008908 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 272562008909 tRNA binding surface [nucleotide binding]; other site 272562008910 anticodon binding site; other site 272562008911 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 272562008912 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562008913 OpgC protein; Region: OpgC_C; cl00792 272562008914 OpgC protein; Region: OpgC_C; cl00792 272562008915 Acyltransferase family; Region: Acyl_transf_3; pfam01757 272562008916 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 272562008917 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562008918 Chain length determinant protein; Region: Wzz; cl15801 272562008919 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 272562008920 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 272562008921 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 272562008922 integral membrane protein MviN; Region: mviN; TIGR01695 272562008923 O-Antigen ligase; Region: Wzy_C; cl04850 272562008924 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272562008925 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 272562008926 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; cl09156 272562008927 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 272562008928 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 272562008929 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 272562008930 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 272562008931 active site 272562008932 motif I; other site 272562008933 motif II; other site 272562008934 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 272562008935 active site 272562008936 dimer interface [polypeptide binding]; other site 272562008937 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 272562008938 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 272562008939 WcbM_like is a subfamily of nucleotidyl transferases; Region: NTP_transferase_WcbM_like; cd06915 272562008940 Substrate binding site; other site 272562008941 Mg++ binding site; other site 272562008942 metal-binding site 272562008943 Mg++ binding site; other site 272562008944 metal-binding site 272562008945 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 272562008946 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 272562008947 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 272562008948 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 272562008949 Substrate binding site; other site 272562008950 Bacterial sugar transferase; Region: Bac_transf; cl00939 272562008951 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 272562008952 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562008953 Chain length determinant protein; Region: Wzz; cl15801 272562008954 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 272562008955 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 272562008956 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 272562008957 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 272562008958 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 272562008959 active site 272562008960 homodimer interface [polypeptide binding]; other site 272562008961 MatE; Region: MatE; cl10513 272562008962 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: GT1_like_1; cd04950 272562008963 putative homodimer interface [polypeptide binding]; other site 272562008964 O-Antigen ligase; Region: Wzy_C; cl04850 272562008965 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272562008966 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 272562008967 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 272562008968 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 272562008969 Probable Catalytic site; other site 272562008970 metal-binding site 272562008971 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272562008972 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 272562008973 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 272562008974 putative ADP-binding pocket [chemical binding]; other site 272562008975 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 272562008976 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 272562008977 Substrate binding site; other site 272562008978 Bacterial sugar transferase; Region: Bac_transf; cl00939 272562008979 VanZ like family; Region: VanZ; cl01971 272562008980 Acetokinase family; Region: Acetate_kinase; cl01029 272562008981 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 272562008982 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 272562008983 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 272562008984 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562008985 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 272562008986 YbbR-like protein; Region: YbbR; pfam07949 272562008987 Uncharacterized conserved protein [Function unknown]; Region: COG1624 272562008988 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 272562008989 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 272562008990 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 272562008991 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 272562008992 catalytic residues [active] 272562008993 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 272562008994 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 272562008995 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 272562008996 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 272562008997 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 272562008998 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 272562008999 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 272562009000 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 272562009001 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 272562009002 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 272562009003 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 272562009004 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 272562009005 dimerization domain swap beta strand [polypeptide binding]; other site 272562009006 regulatory protein interface [polypeptide binding]; other site 272562009007 active site 272562009008 regulatory phosphorylation site [posttranslational modification]; other site 272562009009 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 272562009010 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 272562009011 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 272562009012 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 272562009013 Walker A motif; other site 272562009014 ATP binding site [chemical binding]; other site 272562009015 Walker B motif; other site 272562009016 arginine finger; other site 272562009017 Fumarase C-terminus; Region: Fumerase_C; cl00795 272562009018 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 272562009019 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 272562009020 active site 272562009021 metal binding site [ion binding]; metal-binding site 272562009022 Phosphate transporter family; Region: PHO4; cl00396 272562009023 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 272562009024 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 272562009025 dimer interface [polypeptide binding]; other site 272562009026 substrate binding site [chemical binding]; other site 272562009027 ATP binding site [chemical binding]; other site 272562009028 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 272562009029 substrate binding site [chemical binding]; other site 272562009030 multimerization interface [polypeptide binding]; other site 272562009031 ATP binding site [chemical binding]; other site 272562009032 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 272562009033 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 272562009034 23S rRNA interface [nucleotide binding]; other site 272562009035 L3 interface [polypeptide binding]; other site 272562009036 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 272562009037 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 272562009038 dimerization interface 3.5A [polypeptide binding]; other site 272562009039 active site 272562009040 Cobalt transport protein; Region: CbiQ; cl00463 272562009041 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 272562009042 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 272562009043 Walker A/P-loop; other site 272562009044 ATP binding site [chemical binding]; other site 272562009045 Q-loop/lid; other site 272562009046 ABC transporter signature motif; other site 272562009047 Walker B; other site 272562009048 D-loop; other site 272562009049 H-loop/switch region; other site 272562009050 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 272562009051 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 272562009052 Walker A/P-loop; other site 272562009053 ATP binding site [chemical binding]; other site 272562009054 Q-loop/lid; other site 272562009055 ABC transporter signature motif; other site 272562009056 Walker B; other site 272562009057 D-loop; other site 272562009058 H-loop/switch region; other site 272562009059 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 272562009060 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 272562009061 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 272562009062 alphaNTD homodimer interface [polypeptide binding]; other site 272562009063 alphaNTD - beta interaction site [polypeptide binding]; other site 272562009064 alphaNTD - beta' interaction site [polypeptide binding]; other site 272562009065 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 272562009066 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 272562009067 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 272562009068 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 272562009069 RNA binding surface [nucleotide binding]; other site 272562009070 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 272562009071 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 272562009072 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 272562009073 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 272562009074 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 272562009075 rRNA binding site [nucleotide binding]; other site 272562009076 predicted 30S ribosome binding site; other site 272562009077 Ribosomal protein L14E/L6E/L27E [Translation, ribosomal structure and biogenesis]; Region: RPL14A; COG2163 272562009078 adenylate kinase; Reviewed; Region: adk; PRK00279 272562009079 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 272562009080 AMP-binding site [chemical binding]; other site 272562009081 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 272562009082 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 272562009083 SecY translocase; Region: SecY; pfam00344 272562009084 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 272562009085 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 272562009086 23S rRNA binding site [nucleotide binding]; other site 272562009087 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 272562009088 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 272562009089 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 272562009090 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 272562009091 5S rRNA interface [nucleotide binding]; other site 272562009092 L27 interface [polypeptide binding]; other site 272562009093 23S rRNA interface [nucleotide binding]; other site 272562009094 L5 interface [polypeptide binding]; other site 272562009095 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 272562009096 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 272562009097 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 272562009098 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 272562009099 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 272562009100 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 272562009101 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 272562009102 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 272562009103 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 272562009104 KOW motif; Region: KOW; cl00354 272562009105 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 272562009106 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 272562009107 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 272562009108 23S rRNA interface [nucleotide binding]; other site 272562009109 putative translocon interaction site; other site 272562009110 signal recognition particle (SRP54) interaction site; other site 272562009111 L23 interface [polypeptide binding]; other site 272562009112 trigger factor interaction site; other site 272562009113 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 272562009114 23S rRNA interface [nucleotide binding]; other site 272562009115 5S rRNA interface [nucleotide binding]; other site 272562009116 putative antibiotic binding site [chemical binding]; other site 272562009117 L25 interface [polypeptide binding]; other site 272562009118 L27 interface [polypeptide binding]; other site 272562009119 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 272562009120 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 272562009121 G-X-X-G motif; other site 272562009122 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 272562009123 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 272562009124 putative translocon binding site; other site 272562009125 protein-rRNA interface [nucleotide binding]; other site 272562009126 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 272562009127 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 272562009128 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 272562009129 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 272562009130 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 272562009131 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 272562009132 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 272562009133 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 272562009134 elongation factor Tu; Reviewed; Region: PRK00049 272562009135 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 272562009136 G1 box; other site 272562009137 GEF interaction site [polypeptide binding]; other site 272562009138 GTP/Mg2+ binding site [chemical binding]; other site 272562009139 Switch I region; other site 272562009140 G2 box; other site 272562009141 G3 box; other site 272562009142 Switch II region; other site 272562009143 G4 box; other site 272562009144 G5 box; other site 272562009145 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 272562009146 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 272562009147 Antibiotic Binding Site [chemical binding]; other site 272562009148 elongation factor G; Reviewed; Region: PRK00007 272562009149 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 272562009150 G1 box; other site 272562009151 putative GEF interaction site [polypeptide binding]; other site 272562009152 GTP/Mg2+ binding site [chemical binding]; other site 272562009153 Switch I region; other site 272562009154 G2 box; other site 272562009155 G3 box; other site 272562009156 Switch II region; other site 272562009157 G4 box; other site 272562009158 G5 box; other site 272562009159 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 272562009160 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 272562009161 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 272562009162 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 272562009163 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 272562009164 S17 interaction site [polypeptide binding]; other site 272562009165 S8 interaction site; other site 272562009166 16S rRNA interaction site [nucleotide binding]; other site 272562009167 streptomycin interaction site [chemical binding]; other site 272562009168 23S rRNA interaction site [nucleotide binding]; other site 272562009169 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 272562009170 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 272562009171 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 272562009172 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 272562009173 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 272562009174 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 272562009175 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 272562009176 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 272562009177 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 272562009178 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 272562009179 G-loop; other site 272562009180 DNA binding site [nucleotide binding] 272562009181 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 272562009182 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 272562009183 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 272562009184 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 272562009185 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 272562009186 RPB1 interaction site [polypeptide binding]; other site 272562009187 RPB10 interaction site [polypeptide binding]; other site 272562009188 RPB11 interaction site [polypeptide binding]; other site 272562009189 RPB3 interaction site [polypeptide binding]; other site 272562009190 RPB12 interaction site [polypeptide binding]; other site 272562009191 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 272562009192 core dimer interface [polypeptide binding]; other site 272562009193 peripheral dimer interface [polypeptide binding]; other site 272562009194 L10 interface [polypeptide binding]; other site 272562009195 L11 interface [polypeptide binding]; other site 272562009196 putative EF-Tu interaction site [polypeptide binding]; other site 272562009197 putative EF-G interaction site [polypeptide binding]; other site 272562009198 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 272562009199 23S rRNA interface [nucleotide binding]; other site 272562009200 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 272562009201 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 272562009202 mRNA/rRNA interface [nucleotide binding]; other site 272562009203 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 272562009204 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 272562009205 23S rRNA interface [nucleotide binding]; other site 272562009206 L7/L12 interface [polypeptide binding]; other site 272562009207 putative thiostrepton binding site; other site 272562009208 L25 interface [polypeptide binding]; other site 272562009209 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 272562009210 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 272562009211 putative homodimer interface [polypeptide binding]; other site 272562009212 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 272562009213 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 272562009214 RNA polymerase factor sigma-70; Validated; Region: PRK08295 272562009215 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272562009216 Helix-turn-helix domains; Region: HTH; cl00088 272562009217 YacP-like NYN domain; Region: NYN_YacP; cl01491 272562009218 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 272562009219 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 272562009220 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 272562009221 Thymidylate synthase complementing protein; Region: Thy1; cl03630 272562009222 Thymidylate synthase complementing protein; Region: Thy1; cl03630 272562009223 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 272562009224 dimerization interface [polypeptide binding]; other site 272562009225 active site 272562009226 metal binding site [ion binding]; metal-binding site 272562009227 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 272562009228 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 272562009229 substrate binding site [chemical binding]; other site 272562009230 active site 272562009231 catalytic residues [active] 272562009232 heterodimer interface [polypeptide binding]; other site 272562009233 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 272562009234 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 272562009235 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562009236 catalytic residue [active] 272562009237 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 272562009238 active site 272562009239 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 272562009240 active site 272562009241 ribulose/triose binding site [chemical binding]; other site 272562009242 phosphate binding site [ion binding]; other site 272562009243 substrate (anthranilate) binding pocket [chemical binding]; other site 272562009244 product (indole) binding pocket [chemical binding]; other site 272562009245 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 272562009246 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 272562009247 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 272562009248 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 272562009249 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 272562009250 glutamine binding [chemical binding]; other site 272562009251 catalytic triad [active] 272562009252 anthranilate synthase component I; Provisional; Region: PRK13570 272562009253 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 272562009254 chorismate binding enzyme; Region: Chorismate_bind; cl10555 272562009255 Amino acid transporters [Amino acid transport and metabolism]; Region: LysP; COG0833 272562009256 Spore germination protein; Region: Spore_permease; cl15802 272562009257 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272562009258 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 272562009259 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 272562009260 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 272562009261 PYR/PP interface [polypeptide binding]; other site 272562009262 dimer interface [polypeptide binding]; other site 272562009263 TPP binding site [chemical binding]; other site 272562009264 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 272562009265 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 272562009266 TPP-binding site [chemical binding]; other site 272562009267 dimer interface [polypeptide binding]; other site 272562009268 Dehydratase family; Region: ILVD_EDD; cl00340 272562009269 tartrate dehydrogenase; Provisional; Region: PRK08194 272562009270 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 272562009271 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 272562009272 substrate binding site [chemical binding]; other site 272562009273 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 272562009274 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 272562009275 substrate binding site [chemical binding]; other site 272562009276 ligand binding site [chemical binding]; other site 272562009277 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 272562009278 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 272562009279 active site 272562009280 catalytic residues [active] 272562009281 metal binding site [ion binding]; metal-binding site 272562009282 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 272562009283 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 272562009284 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 272562009285 putative valine binding site [chemical binding]; other site 272562009286 dimer interface [polypeptide binding]; other site 272562009287 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 272562009288 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 272562009289 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 272562009290 active site 272562009291 HIGH motif; other site 272562009292 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 272562009293 KMSKS motif; other site 272562009294 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 272562009295 tRNA binding surface [nucleotide binding]; other site 272562009296 anticodon binding site; other site 272562009297 prolyl-tRNA synthetase; Provisional; Region: PRK09194 272562009298 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 272562009299 dimer interface [polypeptide binding]; other site 272562009300 motif 1; other site 272562009301 active site 272562009302 motif 2; other site 272562009303 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 272562009304 putative deacylase active site [active] 272562009305 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 attaches...; Region: class_II_aaRS-like_core; cl00268 272562009306 active site 272562009307 motif 3; other site 272562009308 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 272562009309 anticodon binding site; other site 272562009310 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 272562009311 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 272562009312 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 272562009313 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 272562009314 dimer interface [polypeptide binding]; other site 272562009315 conserved gate region; other site 272562009316 putative PBP binding loops; other site 272562009317 ABC-ATPase subunit interface; other site 272562009318 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 272562009319 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 272562009320 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 272562009321 putative PBP binding loops; other site 272562009322 dimer interface [polypeptide binding]; other site 272562009323 ABC-ATPase subunit interface; other site 272562009324 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 272562009325 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 272562009326 Walker A/P-loop; other site 272562009327 ATP binding site [chemical binding]; other site 272562009328 Q-loop/lid; other site 272562009329 ABC transporter signature motif; other site 272562009330 Walker B; other site 272562009331 D-loop; other site 272562009332 H-loop/switch region; other site 272562009333 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272562009334 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 272562009335 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 272562009336 Walker A/P-loop; other site 272562009337 ATP binding site [chemical binding]; other site 272562009338 Q-loop/lid; other site 272562009339 ABC transporter signature motif; other site 272562009340 Walker B; other site 272562009341 D-loop; other site 272562009342 H-loop/switch region; other site 272562009343 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272562009344 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 272562009345 substrate binding site; other site 272562009346 dimer interface; other site 272562009347 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 272562009348 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 272562009349 putative active site [active] 272562009350 TRAM domain; Region: TRAM; cl01282 272562009351 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 272562009352 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 272562009353 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 272562009354 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 272562009355 DNA repair protein RadA; Provisional; Region: PRK11823 272562009356 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 272562009357 Walker A motif/ATP binding site; other site 272562009358 ATP binding site [chemical binding]; other site 272562009359 Walker B motif; other site 272562009360 Clp protease ATP binding subunit; Region: clpC; CHL00095 272562009361 Clp amino terminal domain; Region: Clp_N; pfam02861 272562009362 Clp amino terminal domain; Region: Clp_N; pfam02861 272562009363 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 272562009364 Walker A motif; other site 272562009365 ATP binding site [chemical binding]; other site 272562009366 Walker B motif; other site 272562009367 arginine finger; other site 272562009368 UvrB/uvrC motif; Region: UVR; pfam02151 272562009369 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 272562009370 Walker A motif; other site 272562009371 ATP binding site [chemical binding]; other site 272562009372 Walker B motif; other site 272562009373 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 272562009374 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 272562009375 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 272562009376 ADP binding site [chemical binding]; other site 272562009377 phosphagen binding site; other site 272562009378 substrate specificity loop; other site 272562009379 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 272562009380 UvrB/uvrC motif; Region: UVR; pfam02151 272562009381 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 272562009382 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01710 272562009383 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272562009384 glycyl-tRNA synthetase; Provisional; Region: PRK04173 272562009385 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3'...; Region: GlyRS-like_core; cd00774 272562009386 active site 272562009387 motif 2; other site 272562009388 motif 3; other site 272562009389 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 272562009390 anticodon binding site; other site 272562009391 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 272562009392 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 272562009393 dimer interface [polypeptide binding]; other site 272562009394 putative anticodon binding site; other site 272562009395 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 272562009396 motif 1; other site 272562009397 active site 272562009398 motif 2; other site 272562009399 motif 3; other site 272562009400 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 272562009401 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 272562009402 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 272562009403 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 272562009404 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 272562009405 FMN binding site [chemical binding]; other site 272562009406 active site 272562009407 catalytic residues [active] 272562009408 substrate binding site [chemical binding]; other site 272562009409 Type III pantothenate kinase; Region: Pan_kinase; cl09130 272562009410 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 272562009411 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 272562009412 Potassium binding sites [ion binding]; other site 272562009413 Cesium cation binding sites [ion binding]; other site 272562009414 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 272562009415 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 272562009416 Walker A motif; other site 272562009417 ATP binding site [chemical binding]; other site 272562009418 Walker B motif; other site 272562009419 arginine finger; other site 272562009420 Peptidase family M41; Region: Peptidase_M41; pfam01434 272562009421 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 272562009422 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 272562009423 Ligand Binding Site [chemical binding]; other site 272562009424 B3/4 domain; Region: B3_4; cl11458 272562009425 stage II sporulation protein E; Region: spore_II_E; TIGR02865 272562009426 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 272562009427 hypothetical protein; Provisional; Region: PRK05807 272562009428 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 272562009429 RNA binding site [nucleotide binding]; other site 272562009430 Septum formation initiator; Region: DivIC; cl11433 272562009431 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; cl09801 272562009432 YabP family; Region: YabP; cl06766 272562009433 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 272562009434 RNA binding surface [nucleotide binding]; other site 272562009435 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 272562009436 IHF dimer interface [polypeptide binding]; other site 272562009437 IHF - DNA interface [nucleotide binding]; other site 272562009438 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 272562009439 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 272562009440 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 272562009441 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 272562009442 MatE; Region: MatE; cl10513 272562009443 stage V sporulation protein B; Region: spore_V_B; TIGR02900 272562009444 stage V sporulation protein T; Region: spore_V_T; TIGR02851 272562009445 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 272562009446 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 272562009447 PPIC-type PPIASE domain; Region: Rotamase; cl08278 272562009448 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 272562009449 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 272562009450 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 272562009451 ATP binding site [chemical binding]; other site 272562009452 putative Mg++ binding site [ion binding]; other site 272562009453 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 272562009454 nucleotide binding region [chemical binding]; other site 272562009455 ATP-binding site [chemical binding]; other site 272562009456 TRCF domain; Region: TRCF; cl04088 272562009457 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 272562009458 putative active site [active] 272562009459 catalytic residue [active] 272562009460 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 272562009461 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 272562009462 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 272562009463 protein binding site [polypeptide binding]; other site 272562009464 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 272562009465 dimerization interface [polypeptide binding]; other site 272562009466 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 272562009467 dimer interface [polypeptide binding]; other site 272562009468 phosphorylation site [posttranslational modification] 272562009469 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 272562009470 ATP binding site [chemical binding]; other site 272562009471 Mg2+ binding site [ion binding]; other site 272562009472 G-X-G motif; other site 272562009473 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272562009474 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 272562009475 active site 272562009476 phosphorylation site [posttranslational modification] 272562009477 intermolecular recognition site; other site 272562009478 dimerization interface [polypeptide binding]; other site 272562009479 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 272562009480 DNA binding site [nucleotide binding] 272562009481 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 272562009482 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 272562009483 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272562009484 active site 272562009485 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 272562009486 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 272562009487 Substrate binding site; other site 272562009488 Mg++ binding site; other site 272562009489 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 272562009490 active site 272562009491 substrate binding site [chemical binding]; other site 272562009492 CoA binding site [chemical binding]; other site 272562009493 SpoVG; Region: SpoVG; cl00915 272562009494 pur operon repressor; Provisional; Region: PRK09213 272562009495 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 272562009496 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272562009497 active site 272562009498 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 272562009499 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 272562009500 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 272562009501 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272562009502 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 272562009503 active site 272562009504 FMN binding site [chemical binding]; other site 272562009505 substrate binding site [chemical binding]; other site 272562009506 homotetramer interface [polypeptide binding]; other site 272562009507 catalytic residue [active] 272562009508 Iron only hydrogenase large subunit, C-terminal domain [General function prediction only]; Region: COG4624 272562009509 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 272562009510 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272562009511 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 272562009512 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; cl00895 272562009513 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 272562009514 Predicted membrane protein [Function unknown]; Region: COG4640 272562009515 Predicted membrane protein [Function unknown]; Region: COG4640 272562009516 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 272562009517 Helix-turn-helix domains; Region: HTH; cl00088 272562009518 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 272562009519 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 272562009520 Walker A/P-loop; other site 272562009521 ATP binding site [chemical binding]; other site 272562009522 Q-loop/lid; other site 272562009523 ABC transporter signature motif; other site 272562009524 Walker B; other site 272562009525 D-loop; other site 272562009526 H-loop/switch region; other site 272562009527 TOBE domain; Region: TOBE_2; cl01440 272562009528 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 272562009529 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 272562009530 Uncharacterized membrane protein [Function unknown]; Region: COG3949 272562009531 Radical SAM superfamily; Region: Radical_SAM; pfam04055 272562009532 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 272562009533 FeS/SAM binding site; other site 272562009534 Heme NO binding; Region: HNOB; cl15268 272562009535 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 272562009536 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272562009537 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272562009538 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 272562009539 active site 272562009540 catalytic triad [active] 272562009541 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 272562009542 active site 272562009543 catalytic triad [active] 272562009544 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 272562009545 non-specific DNA binding site [nucleotide binding]; other site 272562009546 salt bridge; other site 272562009547 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 272562009548 sequence-specific DNA binding site [nucleotide binding]; other site 272562009549 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 272562009550 Catalytic site [active] 272562009551 Domain of unknown function (DUF3783); Region: DUF3783; pfam12646 272562009552 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 272562009553 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 272562009554 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 272562009555 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272562009556 Zn2+ binding site [ion binding]; other site 272562009557 Mg2+ binding site [ion binding]; other site 272562009558 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 272562009559 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562009560 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 272562009561 nucleotide binding site [chemical binding]; other site 272562009562 homotetrameric interface [polypeptide binding]; other site 272562009563 putative phosphate binding site [ion binding]; other site 272562009564 putative allosteric binding site; other site 272562009565 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 272562009566 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 272562009567 putative catalytic cysteine [active] 272562009568 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272562009569 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 272562009570 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 272562009571 putative dimer interface [polypeptide binding]; other site 272562009572 putative anticodon binding site; other site 272562009573 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 272562009574 homodimer interface [polypeptide binding]; other site 272562009575 motif 1; other site 272562009576 motif 2; other site 272562009577 active site 272562009578 motif 3; other site 272562009579 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 272562009580 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 272562009581 DNA binding site [nucleotide binding] 272562009582 active site 272562009583 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 272562009584 Walker A motif; other site 272562009585 ATP binding site [chemical binding]; other site 272562009586 Walker B motif; other site 272562009587 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 272562009588 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 272562009589 Putative zinc-finger; Region: zf-HC2; cl15806 272562009590 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 272562009591 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272562009592 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 272562009593 DNA binding residues [nucleotide binding] 272562009594 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 272562009595 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 272562009596 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272562009597 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 272562009598 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 272562009599 Walker A/P-loop; other site 272562009600 ATP binding site [chemical binding]; other site 272562009601 Q-loop/lid; other site 272562009602 ABC transporter signature motif; other site 272562009603 Walker B; other site 272562009604 D-loop; other site 272562009605 H-loop/switch region; other site 272562009606 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272562009607 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272562009608 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272562009609 Helix-turn-helix domains; Region: HTH; cl00088 272562009610 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 272562009611 Clostridial hydrophobic W; Region: ChW; cl02763 272562009612 Clostridial hydrophobic W; Region: ChW; cl02763 272562009613 Clostridial hydrophobic W; Region: ChW; cl02763 272562009614 Clostridial hydrophobic W; Region: ChW; cl02763 272562009615 Clostridial hydrophobic W; Region: ChW; cl02763 272562009616 Clostridial hydrophobic W; Region: ChW; cl02763 272562009617 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 272562009618 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 272562009619 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 272562009620 Clostridial hydrophobic W; Region: ChW; cl02763 272562009621 Clostridial hydrophobic W; Region: ChW; cl02763 272562009622 Clostridial hydrophobic W; Region: ChW; cl02763 272562009623 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 272562009624 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 272562009625 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 272562009626 Clostridial hydrophobic W; Region: ChW; cl02763 272562009627 Clostridial hydrophobic W; Region: ChW; cl02763 272562009628 Clostridial hydrophobic W; Region: ChW; cl02763 272562009629 Clostridial hydrophobic W; Region: ChW; cl02763 272562009630 Clostridial hydrophobic W; Region: ChW; cl02763 272562009631 Clostridial hydrophobic W; Region: ChW; cl02763 272562009632 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 272562009633 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 272562009634 Clostridial hydrophobic W; Region: ChW; cl02763 272562009635 Clostridial hydrophobic W; Region: ChW; cl02763 272562009636 Clostridial hydrophobic W; Region: ChW; cl02763 272562009637 Clostridial hydrophobic W; Region: ChW; cl02763 272562009638 Clostridial hydrophobic W; Region: ChW; cl02763 272562009639 Clostridial hydrophobic W; Region: ChW; cl02763 272562009640 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 272562009641 Clostridial hydrophobic W; Region: ChW; cl02763 272562009642 Clostridial hydrophobic W; Region: ChW; cl02763 272562009643 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 272562009644 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 272562009645 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 272562009646 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 272562009647 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 272562009648 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 272562009649 dimer interface [polypeptide binding]; other site 272562009650 putative radical transfer pathway; other site 272562009651 diiron center [ion binding]; other site 272562009652 tyrosyl radical; other site 272562009653 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07088 272562009654 Class I ribonucleotide reductase; Region: RNR_I; cd01679 272562009655 active site 272562009656 dimer interface [polypeptide binding]; other site 272562009657 catalytic residues [active] 272562009658 effector binding site; other site 272562009659 R2 peptide binding site; other site 272562009660 Clostridial hydrophobic W; Region: ChW; cl02763 272562009661 Clostridial hydrophobic W; Region: ChW; cl02763 272562009662 Clostridial hydrophobic W; Region: ChW; cl02763 272562009663 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 272562009664 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 272562009665 Clostridial hydrophobic W; Region: ChW; cl02763 272562009666 Clostridial hydrophobic W; Region: ChW; cl02763 272562009667 Clostridial hydrophobic W; Region: ChW; cl02763 272562009668 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 272562009669 Clostridial hydrophobic W; Region: ChW; cl02763 272562009670 Clostridial hydrophobic W; Region: ChW; cl02763 272562009671 Clostridial hydrophobic W; Region: ChW; cl02763 272562009672 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 272562009673 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 272562009674 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 272562009675 Clostridial hydrophobic W; Region: ChW; cl02763 272562009676 Clostridial hydrophobic W; Region: ChW; cl02763 272562009677 Clostridial hydrophobic W; Region: ChW; cl02763 272562009678 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 272562009679 Clostridial hydrophobic W; Region: ChW; cl02763 272562009680 Clostridial hydrophobic W; Region: ChW; cl02763 272562009681 Clostridial hydrophobic W; Region: ChW; cl02763 272562009682 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 272562009683 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 272562009684 Substrate binding site [chemical binding]; other site 272562009685 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 272562009686 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 272562009687 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 272562009688 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272562009689 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272562009690 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 272562009691 Walker A/P-loop; other site 272562009692 ATP binding site [chemical binding]; other site 272562009693 Q-loop/lid; other site 272562009694 ABC transporter signature motif; other site 272562009695 Walker B; other site 272562009696 D-loop; other site 272562009697 H-loop/switch region; other site 272562009698 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272562009699 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272562009700 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562009701 Walker A/P-loop; other site 272562009702 ATP binding site [chemical binding]; other site 272562009703 Q-loop/lid; other site 272562009704 ABC transporter signature motif; other site 272562009705 Walker B; other site 272562009706 D-loop; other site 272562009707 H-loop/switch region; other site 272562009708 Helix-turn-helix domains; Region: HTH; cl00088 272562009709 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 272562009710 Amino acid permease; Region: AA_permease; cl00524 272562009711 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 272562009712 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 272562009713 Response regulator receiver domain; Region: Response_reg; pfam00072 272562009714 active site 272562009715 phosphorylation site [posttranslational modification] 272562009716 intermolecular recognition site; other site 272562009717 dimerization interface [polypeptide binding]; other site 272562009718 YcbB domain; Region: YcbB; pfam08664 272562009719 FeS assembly ATPase SufC; Region: sufC; TIGR01978 272562009720 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 272562009721 Walker A/P-loop; other site 272562009722 ATP binding site [chemical binding]; other site 272562009723 Q-loop/lid; other site 272562009724 ABC transporter signature motif; other site 272562009725 Walker B; other site 272562009726 D-loop; other site 272562009727 H-loop/switch region; other site 272562009728 FeS assembly protein SufB; Region: sufB; TIGR01980 272562009729 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 272562009730 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 272562009731 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 272562009732 Aminotransferase class-V; Region: Aminotran_5; pfam00266 272562009733 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272562009734 catalytic residue [active] 272562009735 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 272562009736 trimerization site [polypeptide binding]; other site 272562009737 active site 272562009738 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 272562009739 O-Antigen ligase; Region: Wzy_C; cl04850 272562009740 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 272562009741 MatE; Region: MatE; cl10513 272562009742 MatE; Region: MatE; cl10513 272562009743 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 272562009744 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 272562009745 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 272562009746 dimer interface [polypeptide binding]; other site 272562009747 active site 272562009748 metal binding site [ion binding]; metal-binding site 272562009749 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 272562009750 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 272562009751 dimer interface [polypeptide binding]; other site 272562009752 active site 272562009753 metal binding site [ion binding]; metal-binding site 272562009754 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 272562009755 Spore germination protein; Region: Spore_permease; cl15802 272562009756 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 272562009757 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 272562009758 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 272562009759 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 272562009760 ATP binding site [chemical binding]; other site 272562009761 putative Mg++ binding site [ion binding]; other site 272562009762 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 272562009763 nucleotide binding region [chemical binding]; other site 272562009764 ATP-binding site [chemical binding]; other site 272562009765 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 272562009766 dimer interface [polypeptide binding]; other site 272562009767 catalytic triad [active] 272562009768 peroxidatic and resolving cysteines [active] 272562009769 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 272562009770 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 272562009771 putative metal binding site; other site 272562009772 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 272562009773 binding surface 272562009774 TPR motif; other site 272562009775 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 272562009776 binding surface 272562009777 TPR motif; other site 272562009778 hypothetical protein; Provisional; Region: PRK09946 272562009779 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 272562009780 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 272562009781 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562009782 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 272562009783 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 272562009784 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272562009785 Phosphopantetheine attachment site; Region: PP-binding; cl09936 272562009786 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 272562009787 dimer interface [polypeptide binding]; other site 272562009788 FMN binding site [chemical binding]; other site 272562009789 heat shock protein 90; Provisional; Region: PRK05218 272562009790 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 272562009791 ATP binding site [chemical binding]; other site 272562009792 Mg2+ binding site [ion binding]; other site 272562009793 G-X-G motif; other site 272562009794 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 272562009795 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 272562009796 putative active site [active] 272562009797 catalytic site [active] 272562009798 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 272562009799 putative active site [active] 272562009800 catalytic site [active] 272562009801 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 272562009802 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 272562009803 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 272562009804 dimer interface [polypeptide binding]; other site 272562009805 phosphorylation site [posttranslational modification] 272562009806 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 272562009807 ATP binding site [chemical binding]; other site 272562009808 Mg2+ binding site [ion binding]; other site 272562009809 G-X-G motif; other site 272562009810 NlpC/P60 family; Region: NLPC_P60; cl11438 272562009811 Protein of unknown function (DUF3237); Region: DUF3237; cl07905 272562009812 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 272562009813 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 272562009814 non-specific DNA binding site [nucleotide binding]; other site 272562009815 salt bridge; other site 272562009816 sequence-specific DNA binding site [nucleotide binding]; other site 272562009817 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 272562009818 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 272562009819 substrate binding pocket [chemical binding]; other site 272562009820 membrane-bound complex binding site; other site 272562009821 hinge residues; other site 272562009822 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 272562009823 dimer interface [polypeptide binding]; other site 272562009824 conserved gate region; other site 272562009825 putative PBP binding loops; other site 272562009826 ABC-ATPase subunit interface; other site 272562009827 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 272562009828 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 272562009829 Walker A/P-loop; other site 272562009830 ATP binding site [chemical binding]; other site 272562009831 Q-loop/lid; other site 272562009832 ABC transporter signature motif; other site 272562009833 Walker B; other site 272562009834 D-loop; other site 272562009835 H-loop/switch region; other site 272562009836 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 272562009837 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 272562009838 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 272562009839 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 272562009840 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 272562009841 active site 272562009842 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272562009843 dimer interface [polypeptide binding]; other site 272562009844 substrate binding site [chemical binding]; other site 272562009845 catalytic residues [active] 272562009846 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 272562009847 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 272562009848 active site 272562009849 Uncharacterized conserved protein related to pyruvate formate-lyase activating enzyme [General function prediction only]; Region: COG2108 272562009850 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 272562009851 FeS/SAM binding site; other site 272562009852 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272562009853 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 272562009854 short chain dehydrogenase; Provisional; Region: PRK09291 272562009855 NADP binding site [chemical binding]; other site 272562009856 active site 272562009857 steroid binding site; other site 272562009858 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 272562009859 transcriptional activator FtrB; Provisional; Region: ftrB; PRK09392 272562009860 ligand binding site [chemical binding]; other site 272562009861 flexible hinge region; other site 272562009862 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 272562009863 Helix-turn-helix domains; Region: HTH; cl00088 272562009864 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 272562009865 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562009866 Walker A/P-loop; other site 272562009867 ATP binding site [chemical binding]; other site 272562009868 Q-loop/lid; other site 272562009869 ABC transporter signature motif; other site 272562009870 Walker B; other site 272562009871 D-loop; other site 272562009872 H-loop/switch region; other site 272562009873 ABC transporter; Region: ABC_tran_2; pfam12848 272562009874 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 272562009875 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 272562009876 synthetase active site [active] 272562009877 NTP binding site [chemical binding]; other site 272562009878 metal binding site [ion binding]; metal-binding site 272562009879 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272562009880 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 272562009881 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562009882 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 272562009883 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 272562009884 FeS/SAM binding site; other site 272562009885 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 272562009886 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272562009887 Helix-turn-helix domains; Region: HTH; cl00088 272562009888 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 272562009889 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 272562009890 putative substrate translocation pore; other site 272562009891 Amino acid transporters [Amino acid transport and metabolism]; Region: LysP; COG0833 272562009892 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 272562009893 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 272562009894 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272562009895 Helix-turn-helix domains; Region: HTH; cl00088 272562009896 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 272562009897 dimerization interface [polypeptide binding]; other site 272562009898 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 272562009899 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 272562009900 conserved cys residue [active] 272562009901 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 272562009902 Cache domain; Region: Cache_1; pfam02743 272562009903 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 272562009904 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 272562009905 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272562009906 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 272562009907 MatE; Region: MatE; cl10513 272562009908 MatE; Region: MatE; cl10513 272562009909 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 272562009910 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 272562009911 active site 272562009912 Acyl transferase domain; Region: Acyl_transf_1; cl08282 272562009913 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 272562009914 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 272562009915 putative NADP binding site [chemical binding]; other site 272562009916 active site 272562009917 Phosphopantetheine attachment site; Region: PP-binding; cl09936 272562009918 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272562009919 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 272562009920 active site 272562009921 metal binding site [ion binding]; metal-binding site 272562009922 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562009923 4Fe-4S binding domain; Region: Fer4; cl02805 272562009924 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 272562009925 4Fe-4S binding domain; Region: Fer4; cl02805 272562009926 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 272562009927 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 272562009928 FMN binding site [chemical binding]; other site 272562009929 dimer interface [polypeptide binding]; other site 272562009930 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272562009931 Helix-turn-helix domains; Region: HTH; cl00088 272562009932 The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold; Region: PBP2_GltC_like; cd08434 272562009933 putative dimerization interface [polypeptide binding]; other site 272562009934 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272562009935 Helix-turn-helix domains; Region: HTH; cl00088 272562009936 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 272562009937 dimerization interface [polypeptide binding]; other site 272562009938 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 272562009939 Barstar_SaI14_like contains sequences that are similar to SaI14, an RNAase inhibitor, which are members of the Barstar family. Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds...; Region: Barstar_SaI14_like; cd05143 272562009940 putative RNAase interaction site [polypeptide binding]; other site 272562009941 chaperonin_like superfamily. 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. There are 2 main chaperonin groups. The symmetry of type I...; Region: chaperonin_like; cl02777 272562009942 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 272562009943 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 272562009944 putative substrate translocation pore; other site 272562009945 Helix-turn-helix domains; Region: HTH; cl00088 272562009946 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 272562009947 Enoate reductase (ER)-like FMN-binding domain. Enoate reductase catalyzes the NADH-dependent reduction of carbon-carbon double bonds of several molecules, including nonactivated 2-enoates, alpha,beta-unsaturated aldehydes, cyclic ketones, and...; Region: ER_like_FMN; cd02931 272562009948 putative active site [active] 272562009949 putative FMN binding site [chemical binding]; other site 272562009950 putative substrate binding site [chemical binding]; other site 272562009951 putative catalytic residue [active] 272562009952 putative 4Fe-4S cluster binding site [ion binding]; other site 272562009953 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562009954 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562009955 Protein of unknown function (DUF421); Region: DUF421; cl00990 272562009956 Pectinesterase; Region: Pectinesterase; cl01911 272562009957 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272562009958 Coenzyme A binding pocket [chemical binding]; other site 272562009959 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 272562009960 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 272562009961 NAD binding site [chemical binding]; other site 272562009962 catalytic Zn binding site [ion binding]; other site 272562009963 structural Zn binding site [ion binding]; other site 272562009964 Cupin domain; Region: Cupin_2; cl09118 272562009965 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 272562009966 NodB motif; other site 272562009967 active site 272562009968 catalytic site [active] 272562009969 Zn binding site [ion binding]; other site 272562009970 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 272562009971 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 272562009972 active site 272562009973 catalytic tetrad [active] 272562009974 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272562009975 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272562009976 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 272562009977 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 272562009978 hypothetical protein; Reviewed; Region: PRK09588 272562009979 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 272562009980 RF-1 domain; Region: RF-1; cl02875 272562009981 Predicted transcriptional regulator [Transcription]; Region: COG2378 272562009982 WYL domain; Region: WYL; cl14852 272562009983 WYL domain; Region: WYL; cl14852 272562009984 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272562009985 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]; Region: COG3947 272562009986 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 272562009987 active site 272562009988 phosphorylation site [posttranslational modification] 272562009989 intermolecular recognition site; other site 272562009990 dimerization interface [polypeptide binding]; other site 272562009991 Helix-turn-helix domains; Region: HTH; cl00088 272562009992 sensory histidine kinase AtoS; Provisional; Region: PRK11360 272562009993 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 272562009994 dimer interface [polypeptide binding]; other site 272562009995 phosphorylation site [posttranslational modification] 272562009996 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 272562009997 ATP binding site [chemical binding]; other site 272562009998 Mg2+ binding site [ion binding]; other site 272562009999 G-X-G motif; other site 272562010000 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 272562010001 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 272562010002 dimer interface [polypeptide binding]; other site 272562010003 active site 272562010004 metal binding site [ion binding]; metal-binding site 272562010005 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 272562010006 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 272562010007 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 272562010008 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 272562010009 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 272562010010 putative NADH binding site [chemical binding]; other site 272562010011 putative active site [active] 272562010012 nudix motif; other site 272562010013 putative metal binding site [ion binding]; other site 272562010014 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 272562010015 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272562010016 dimer interface [polypeptide binding]; other site 272562010017 putative CheW interface [polypeptide binding]; other site 272562010018 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 272562010019 substrate binding site [chemical binding]; other site 272562010020 Helix-turn-helix domains; Region: HTH; cl00088 272562010021 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 272562010022 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562010023 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 272562010024 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272562010025 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272562010026 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 272562010027 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272562010028 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562010029 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 272562010030 Walker A/P-loop; other site 272562010031 ATP binding site [chemical binding]; other site 272562010032 Q-loop/lid; other site 272562010033 ABC transporter signature motif; other site 272562010034 Walker B; other site 272562010035 D-loop; other site 272562010036 H-loop/switch region; other site 272562010037 Helix-turn-helix domains; Region: HTH; cl00088 272562010038 Acyl-CoA thioester hydrolase/BAAT N-terminal region; Region: Bile_Hydr_Trans; pfam04775 272562010039 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272562010040 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272562010041 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 272562010042 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 272562010043 active site 272562010044 FMN binding site [chemical binding]; other site 272562010045 substrate binding site [chemical binding]; other site 272562010046 putative catalytic residue [active] 272562010047 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562010048 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 272562010049 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272562010050 Helix-turn-helix domains; Region: HTH; cl00088 272562010051 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 272562010052 dimerization interface [polypeptide binding]; other site 272562010053 substrate binding pocket [chemical binding]; other site 272562010054 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272562010055 Zn2+ binding site [ion binding]; other site 272562010056 Mg2+ binding site [ion binding]; other site 272562010057 GH3 auxin-responsive promoter; Region: GH3; cl04006 272562010058 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 272562010059 Transcriptional regulators [Transcription]; Region: MarR; COG1846 272562010060 Helix-turn-helix domains; Region: HTH; cl00088 272562010061 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272562010062 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272562010063 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562010064 Walker A/P-loop; other site 272562010065 ATP binding site [chemical binding]; other site 272562010066 Q-loop/lid; other site 272562010067 ABC transporter signature motif; other site 272562010068 Walker B; other site 272562010069 D-loop; other site 272562010070 H-loop/switch region; other site 272562010071 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272562010072 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272562010073 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 272562010074 Walker A/P-loop; other site 272562010075 ATP binding site [chemical binding]; other site 272562010076 Q-loop/lid; other site 272562010077 ABC transporter signature motif; other site 272562010078 Walker B; other site 272562010079 D-loop; other site 272562010080 H-loop/switch region; other site 272562010081 Staygreen protein; Region: Staygreen; pfam12638 272562010082 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272562010083 Helix-turn-helix domains; Region: HTH; cl00088 272562010084 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 272562010085 S-adenosylmethionine binding site [chemical binding]; other site 272562010086 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 272562010087 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272562010088 catalytic residue [active] 272562010089 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272562010090 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 272562010091 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 272562010092 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 272562010093 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272562010094 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 272562010095 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 272562010096 putative active site [active] 272562010097 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 272562010098 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 272562010099 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 272562010100 active site turn [active] 272562010101 phosphorylation site [posttranslational modification] 272562010102 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 272562010103 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 272562010104 NAD binding site [chemical binding]; other site 272562010105 sugar binding site [chemical binding]; other site 272562010106 divalent metal binding site [ion binding]; other site 272562010107 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 272562010108 dimer interface [polypeptide binding]; other site 272562010109 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 272562010110 HPr interaction site; other site 272562010111 glycerol kinase (GK) interaction site [polypeptide binding]; other site 272562010112 active site 272562010113 phosphorylation site [posttranslational modification] 272562010114 hybrid cluster protein; Provisional; Region: PRK05290 272562010115 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 272562010116 ACS interaction site; other site 272562010117 CODH interaction site; other site 272562010118 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 272562010119 hybrid metal cluster; other site 272562010120 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272562010121 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 272562010122 active site 272562010123 phosphorylation site [posttranslational modification] 272562010124 intermolecular recognition site; other site 272562010125 dimerization interface [polypeptide binding]; other site 272562010126 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 272562010127 DNA binding residues [nucleotide binding] 272562010128 dimerization interface [polypeptide binding]; other site 272562010129 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 272562010130 Histidine kinase; Region: HisKA_3; pfam07730 272562010131 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 272562010132 Protein export membrane protein; Region: SecD_SecF; cl14618 272562010133 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272562010134 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272562010135 Helix-turn-helix domains; Region: HTH; cl00088 272562010136 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 272562010137 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 272562010138 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 272562010139 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 272562010140 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 272562010141 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 272562010142 Helix-turn-helix domains; Region: HTH; cl00088 272562010143 Predicted membrane protein [Function unknown]; Region: COG4129 272562010144 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 272562010145 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 272562010146 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 272562010147 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 272562010148 ATP binding site [chemical binding]; other site 272562010149 putative Mg++ binding site [ion binding]; other site 272562010150 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 272562010151 nucleotide binding region [chemical binding]; other site 272562010152 ATP-binding site [chemical binding]; other site 272562010153 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 272562010154 DNA polymerase III, alpha chain, Gram-positive type; Region: polC_Gram_pos; TIGR01405 272562010155 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 272562010156 generic binding surface II; other site 272562010157 generic binding surface I; other site 272562010158 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 272562010159 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 272562010160 active site 272562010161 substrate binding site [chemical binding]; other site 272562010162 catalytic site [active] 272562010163 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 272562010164 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 272562010165 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 272562010166 DNA binding residues [nucleotide binding] 272562010167 dimer interface [polypeptide binding]; other site 272562010168 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 272562010169 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 272562010170 MatE; Region: MatE; cl10513 272562010171 MatE; Region: MatE; cl10513 272562010172 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 272562010173 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 272562010174 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 272562010175 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 272562010176 catalytic residues [active] 272562010177 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_like_4; cd04501 272562010178 active site 272562010179 catalytic triad [active] 272562010180 oxyanion hole [active] 272562010181 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 272562010182 binding surface 272562010183 TPR motif; other site 272562010184 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 272562010185 binding surface 272562010186 TPR motif; other site 272562010187 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 272562010188 binding surface 272562010189 TPR motif; other site 272562010190 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 272562010191 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 272562010192 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 272562010193 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 272562010194 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 272562010195 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 272562010196 inhibitor binding site; inhibition site 272562010197 active site 272562010198 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 272562010199 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 272562010200 FMN binding site [chemical binding]; other site 272562010201 active site 272562010202 catalytic residues [active] 272562010203 substrate binding site [chemical binding]; other site 272562010204 Protein of unknown function (DUF1284); Region: DUF1284; cl01419 272562010205 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 272562010206 BNR repeat-like domain; Region: BNR_2; pfam13088 272562010207 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 272562010208 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 272562010209 DNA binding residues [nucleotide binding] 272562010210 Tubulin/FtsZ: Family includes tubulin alpha-, beta-, gamma-, delta-, and epsilon-tubulins as well as FtsZ, all of which are involved in polymer formation. Tubulin is the major component of microtubules, but also exists as a heterodimer and as a curved...; Region: Tubulin_FtsZ; cl10017 272562010211 nucleotide binding site [chemical binding]; other site 272562010212 V-type ATP synthase subunit I; Validated; Region: PRK05771 272562010213 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 272562010214 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562010215 NAD(P) binding site [chemical binding]; other site 272562010216 active site 272562010217 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 272562010218 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 272562010219 Isochorismatase family; Region: Isochorismatase; pfam00857 272562010220 catalytic triad [active] 272562010221 conserved cis-peptide bond; other site 272562010222 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272562010223 Helix-turn-helix domains; Region: HTH; cl00088 272562010224 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 272562010225 dimerization interface [polypeptide binding]; other site 272562010226 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 272562010227 dimer interface [polypeptide binding]; other site 272562010228 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 272562010229 dimer interface [polypeptide binding]; other site 272562010230 Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]; Region: UvrC; COG0322 272562010231 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 272562010232 GIY-YIG motif/motif A; other site 272562010233 active site 272562010234 catalytic site [active] 272562010235 putative DNA binding site [nucleotide binding]; other site 272562010236 metal binding site [ion binding]; metal-binding site 272562010237 UvrB/uvrC motif; Region: UVR; pfam02151 272562010238 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 272562010239 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 272562010240 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 272562010241 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 272562010242 active site 272562010243 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 272562010244 non-specific DNA binding site [nucleotide binding]; other site 272562010245 salt bridge; other site 272562010246 sequence-specific DNA binding site [nucleotide binding]; other site 272562010247 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 272562010248 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 272562010249 putative substrate translocation pore; other site 272562010250 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 272562010251 DNA binding residues [nucleotide binding] 272562010252 dimer interface [polypeptide binding]; other site 272562010253 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 272562010254 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 272562010255 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272562010256 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272562010257 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272562010258 dimer interface [polypeptide binding]; other site 272562010259 putative CheW interface [polypeptide binding]; other site 272562010260 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272562010261 Helix-turn-helix domains; Region: HTH; cl00088 272562010262 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 272562010263 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 272562010264 putative substrate translocation pore; other site 272562010265 4Fe-4S binding domain; Region: Fer4; cl02805 272562010266 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 272562010267 4Fe-4S binding domain; Region: Fer4; cl02805 272562010268 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 272562010269 putative FMN binding site [chemical binding]; other site 272562010270 short chain dehydrogenase; Provisional; Region: PRK06197 272562010271 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562010272 NAD(P) binding site [chemical binding]; other site 272562010273 active site 272562010274 Helix-turn-helix domains; Region: HTH; cl00088 272562010275 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272562010276 Helix-turn-helix domains; Region: HTH; cl00088 272562010277 Helix-turn-helix domains; Region: HTH; cl00088 272562010278 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 272562010279 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 272562010280 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 272562010281 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 272562010282 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 272562010283 FeS/SAM binding site; other site 272562010284 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 272562010285 Predicted transcriptional regulator [Transcription]; Region: COG2378 272562010286 Helix-turn-helix domains; Region: HTH; cl00088 272562010287 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272562010288 Helix-turn-helix domains; Region: HTH; cl00088 272562010289 Fructoselysine kinase-like. Fructoselysine is a fructoseamine formed by glycation, a non-enzymatic reaction of glucose with a primary amine followed by an Amadori rearrangement, resulting in a protein that is modified at the amino terminus and at the...; Region: Fructoselysine_kinase_like; cd01940 272562010290 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 272562010291 substrate binding site [chemical binding]; other site 272562010292 ATP binding site [chemical binding]; other site 272562010293 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 272562010294 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 272562010295 AP (apurinic/apyrimidinic) site pocket; other site 272562010296 Metal-binding active site; metal-binding site 272562010297 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 272562010298 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS_1; cd05710 272562010299 putative active site [active] 272562010300 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 272562010301 dimer interface [polypeptide binding]; other site 272562010302 active site 272562010303 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 272562010304 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272562010305 DNA-binding site [nucleotide binding]; DNA binding site 272562010306 UTRA domain; Region: UTRA; cl01230 272562010307 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 272562010308 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 272562010309 NADP binding site [chemical binding]; other site 272562010310 putative substrate binding site [chemical binding]; other site 272562010311 active site 272562010312 Helix-turn-helix domains; Region: HTH; cl00088 272562010313 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272562010314 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 272562010315 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 272562010316 putative substrate translocation pore; other site 272562010317 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 272562010318 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 272562010319 DNA binding residues [nucleotide binding] 272562010320 putative dimer interface [polypeptide binding]; other site 272562010321 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 272562010322 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 272562010323 metal binding site [ion binding]; metal-binding site 272562010324 First Helix-Turn-Helix DNA binding domain of the regulatory protein TioE; Region: HTH_TioE_rpt1; cd04772 272562010325 DNA binding residues [nucleotide binding] 272562010326 putative dimer interface [polypeptide binding]; other site 272562010327 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cd04761 272562010328 DNA binding residues [nucleotide binding] 272562010329 Cache domain; Region: Cache_1; pfam02743 272562010330 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 272562010331 dimerization interface [polypeptide binding]; other site 272562010332 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272562010333 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272562010334 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 272562010335 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 272562010336 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 272562010337 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272562010338 Cupin domain; Region: Cupin_2; cl09118 272562010339 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272562010340 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272562010341 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272562010342 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 272562010343 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 272562010344 putative active site [active] 272562010345 putative NTP binding site [chemical binding]; other site 272562010346 putative nucleic acid binding site [nucleotide binding]; other site 272562010347 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 272562010348 Alpha/beta hydrolase of unknown function (DUF1100); Region: DUF1100; pfam06500 272562010349 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 272562010350 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272562010351 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 272562010352 dimerization interface [polypeptide binding]; other site 272562010353 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 272562010354 dimer interface [polypeptide binding]; other site 272562010355 phosphorylation site [posttranslational modification] 272562010356 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 272562010357 ATP binding site [chemical binding]; other site 272562010358 Mg2+ binding site [ion binding]; other site 272562010359 G-X-G motif; other site 272562010360 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272562010361 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 272562010362 active site 272562010363 phosphorylation site [posttranslational modification] 272562010364 intermolecular recognition site; other site 272562010365 dimerization interface [polypeptide binding]; other site 272562010366 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 272562010367 DNA binding site [nucleotide binding] 272562010368 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272562010369 Helix-turn-helix domains; Region: HTH; cl00088 272562010370 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272562010371 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272562010372 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562010373 Walker A/P-loop; other site 272562010374 ATP binding site [chemical binding]; other site 272562010375 Q-loop/lid; other site 272562010376 ABC transporter signature motif; other site 272562010377 Walker B; other site 272562010378 D-loop; other site 272562010379 H-loop/switch region; other site 272562010380 NAD+--asparagine ADP-ribosyltransferase [Signal transduction mechanisms]; Region: COG5585 272562010381 Predicted transcriptional regulator [Transcription]; Region: COG1959 272562010382 Helix-turn-helix domains; Region: HTH; cl00088 272562010383 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 272562010384 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 272562010385 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 272562010386 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 272562010387 accessory Sec system protein Asp2; Region: acc_sec_asp2; TIGR03712 272562010388 Transposase IS200 like; Region: Y1_Tnp; cl00848 272562010389 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 272562010390 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562010391 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 272562010392 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 272562010393 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 272562010394 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 272562010395 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 272562010396 hypothetical protein; Provisional; Region: PRK05590 272562010397 SEC-C motif; Region: SEC-C; pfam02810 272562010398 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272562010399 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 272562010400 hinge; other site 272562010401 active site 272562010402 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 272562010403 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 272562010404 Dimeric dUTPase [Carbohydrate transport and metabolism]; Region: COG4508 272562010405 dUTPase; Region: dUTPase_2; pfam08761 272562010406 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 272562010407 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272562010408 metal binding site [ion binding]; metal-binding site 272562010409 active site 272562010410 I-site; other site 272562010411 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272562010412 dimer interface [polypeptide binding]; other site 272562010413 putative CheW interface [polypeptide binding]; other site 272562010414 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 272562010415 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 272562010416 catalytic residues [active] 272562010417 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 272562010418 Protein of unknown function, DUF606; Region: DUF606; cl01273 272562010419 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 272562010420 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 272562010421 active site 272562010422 catalytic residues [active] 272562010423 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 272562010424 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272562010425 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 272562010426 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562010427 Walker A/P-loop; other site 272562010428 ATP binding site [chemical binding]; other site 272562010429 Q-loop/lid; other site 272562010430 ABC transporter signature motif; other site 272562010431 Walker B; other site 272562010432 D-loop; other site 272562010433 H-loop/switch region; other site 272562010434 A subgroup of L-lactate dehydrogenases; Region: LDH_3; cd05290 272562010435 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 272562010436 NAD binding site [chemical binding]; other site 272562010437 dimer interface [polypeptide binding]; other site 272562010438 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272562010439 substrate binding site [chemical binding]; other site 272562010440 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272562010441 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272562010442 DNA binding site [nucleotide binding] 272562010443 domain linker motif; other site 272562010444 Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_hexuronate_repressor_like; cd06272 272562010445 putative dimerization interface [polypeptide binding]; other site 272562010446 putative ligand binding site [chemical binding]; other site 272562010447 Uncharacterized protein containing a NRPS condensation (elongation) domain [General function prediction only]; Region: COG4908 272562010448 NAD(P)H:flavin oxidoreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_2; cd02151 272562010449 putative FMN binding site [chemical binding]; other site 272562010450 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 272562010451 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272562010452 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272562010453 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 272562010454 Walker A/P-loop; other site 272562010455 ATP binding site [chemical binding]; other site 272562010456 Q-loop/lid; other site 272562010457 ABC transporter signature motif; other site 272562010458 Walker B; other site 272562010459 D-loop; other site 272562010460 H-loop/switch region; other site 272562010461 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272562010462 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 272562010463 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272562010464 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 272562010465 FtsX-like permease family; Region: FtsX; cl15850 272562010466 chemotaxis protein CheA; Provisional; Region: PRK10547 272562010467 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272562010468 Zn2+ binding site [ion binding]; other site 272562010469 Mg2+ binding site [ion binding]; other site 272562010470 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 272562010471 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562010472 Walker A/P-loop; other site 272562010473 ATP binding site [chemical binding]; other site 272562010474 Q-loop/lid; other site 272562010475 ABC transporter signature motif; other site 272562010476 Walker B; other site 272562010477 D-loop; other site 272562010478 H-loop/switch region; other site 272562010479 aspartyl-tRNA synthetase; Provisional; Region: aspC; PRK05159 272562010480 Asp_Lys_Asn_RS_N: N-terminal, anticodon recognition domain of class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. Class 2b aaRSs include the homodimeric aspartyl-; Region: Asp_Lys_Asn_RS_N; cd04100 272562010481 Dimer interface [polypeptide binding]; other site 272562010482 anticodon binding site; other site 272562010483 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 272562010484 homodimer interface [polypeptide binding]; other site 272562010485 motif 1; other site 272562010486 motif 2; other site 272562010487 active site 272562010488 motif 3; other site 272562010489 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 272562010490 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 272562010491 DNA topoisomerase III; Provisional; Region: PRK07726 272562010492 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 272562010493 active site 272562010494 putative interdomain interaction site [polypeptide binding]; other site 272562010495 putative metal-binding site [ion binding]; other site 272562010496 putative nucleotide binding site [chemical binding]; other site 272562010497 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 272562010498 domain I; other site 272562010499 DNA binding groove [nucleotide binding] 272562010500 phosphate binding site [ion binding]; other site 272562010501 domain II; other site 272562010502 domain III; other site 272562010503 nucleotide binding site [chemical binding]; other site 272562010504 catalytic site [active] 272562010505 domain IV; other site 272562010506 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl14780 272562010507 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 272562010508 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl14780 272562010509 biotin carboxylase; Validated; Region: PRK05586 272562010510 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272562010511 ATP-grasp domain; Region: ATP-grasp_4; cl03087 272562010512 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 272562010513 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 272562010514 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 272562010515 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 272562010516 carboxyltransferase (CT) interaction site; other site 272562010517 biotinylation site [posttranslational modification]; other site 272562010518 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 272562010519 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 272562010520 dimer interface [polypeptide binding]; other site 272562010521 active site 272562010522 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 272562010523 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 272562010524 NAD(P) binding site [chemical binding]; other site 272562010525 homotetramer interface [polypeptide binding]; other site 272562010526 homodimer interface [polypeptide binding]; other site 272562010527 active site 272562010528 Acyl transferase domain; Region: Acyl_transf_1; cl08282 272562010529 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 272562010530 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 272562010531 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 272562010532 FMN binding site [chemical binding]; other site 272562010533 substrate binding site [chemical binding]; other site 272562010534 putative catalytic residue [active] 272562010535 Phosphopantetheine attachment site; Region: PP-binding; cl09936 272562010536 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 272562010537 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 272562010538 dimer interface [polypeptide binding]; other site 272562010539 active site 272562010540 CoA binding pocket [chemical binding]; other site 272562010541 Helix-turn-helix domains; Region: HTH; cl00088 272562010542 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 272562010543 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 272562010544 FMN binding site [chemical binding]; other site 272562010545 substrate binding site [chemical binding]; other site 272562010546 putative catalytic residue [active] 272562010547 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 272562010548 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 272562010549 motif II; other site 272562010550 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 272562010551 FtsX-like permease family; Region: FtsX; pfam02687 272562010552 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272562010553 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 272562010554 FtsX-like permease family; Region: FtsX; cl15850 272562010555 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272562010556 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 272562010557 Walker A/P-loop; other site 272562010558 ATP binding site [chemical binding]; other site 272562010559 Q-loop/lid; other site 272562010560 ABC transporter signature motif; other site 272562010561 Walker B; other site 272562010562 D-loop; other site 272562010563 H-loop/switch region; other site 272562010564 competence damage-inducible protein A; Provisional; Region: PRK00549 272562010565 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 272562010566 putative MPT binding site; other site 272562010567 Competence-damaged protein; Region: CinA; cl00666 272562010568 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 272562010569 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 272562010570 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 272562010571 DNA replication protein DnaC; Validated; Region: PRK06835 272562010572 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 272562010573 Walker A motif; other site 272562010574 ATP binding site [chemical binding]; other site 272562010575 Predicted membrane protein [Function unknown]; Region: COG1511 272562010576 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 272562010577 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 272562010578 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 272562010579 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272562010580 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562010581 flavoprotein, HI0933 family; Region: TIGR00275 272562010582 Acyl-ACP thioesterase [Lipid metabolism]; Region: FatA; COG3884 272562010583 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 272562010584 active site 272562010585 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 272562010586 active site 272562010587 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 272562010588 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 272562010589 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 272562010590 GDP-binding site [chemical binding]; other site 272562010591 ACT binding site; other site 272562010592 IMP binding site; other site 272562010593 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272562010594 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 272562010595 putative ADP-binding pocket [chemical binding]; other site 272562010596 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 272562010597 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562010598 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 272562010599 Rubredoxin [Energy production and conversion]; Region: COG1773 272562010600 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cd00350 272562010601 iron binding site [ion binding]; other site 272562010602 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 272562010603 diiron binding motif [ion binding]; other site 272562010604 Rubredoxin [Energy production and conversion]; Region: COG1773 272562010605 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 272562010606 iron binding site [ion binding]; other site 272562010607 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 272562010608 diiron binding motif [ion binding]; other site 272562010609 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 272562010610 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 272562010611 dimer interface [polypeptide binding]; other site 272562010612 active site 272562010613 catalytic residue [active] 272562010614 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 272562010615 dimer interface [polypeptide binding]; other site 272562010616 active site 272562010617 ADP-ribose binding site [chemical binding]; other site 272562010618 nudix motif; other site 272562010619 metal binding site [ion binding]; metal-binding site 272562010620 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272562010621 Zn2+ binding site [ion binding]; other site 272562010622 Mg2+ binding site [ion binding]; other site 272562010623 Transcriptional regulators [Transcription]; Region: FadR; COG2186 272562010624 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272562010625 DNA-binding site [nucleotide binding]; DNA binding site 272562010626 FCD domain; Region: FCD; cl11656 272562010627 Dehydratase family; Region: ILVD_EDD; cl00340 272562010628 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 272562010629 gluconate transporter; Region: gntP; TIGR00791 272562010630 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272562010631 Helix-turn-helix domains; Region: HTH; cl00088 272562010632 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 272562010633 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562010634 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562010635 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 272562010636 Walker A/P-loop; other site 272562010637 ATP binding site [chemical binding]; other site 272562010638 Q-loop/lid; other site 272562010639 ABC transporter signature motif; other site 272562010640 Walker B; other site 272562010641 D-loop; other site 272562010642 H-loop/switch region; other site 272562010643 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272562010644 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 272562010645 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 272562010646 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562010647 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 272562010648 dimerization interface [polypeptide binding]; other site 272562010649 DNA binding residues [nucleotide binding] 272562010650 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272562010651 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272562010652 FtsX-like permease family; Region: FtsX; pfam02687 272562010653 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272562010654 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 272562010655 Walker A/P-loop; other site 272562010656 ATP binding site [chemical binding]; other site 272562010657 Q-loop/lid; other site 272562010658 ABC transporter signature motif; other site 272562010659 Walker B; other site 272562010660 D-loop; other site 272562010661 H-loop/switch region; other site 272562010662 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 272562010663 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 272562010664 Walker A/P-loop; other site 272562010665 ATP binding site [chemical binding]; other site 272562010666 Q-loop/lid; other site 272562010667 ABC transporter signature motif; other site 272562010668 Walker B; other site 272562010669 D-loop; other site 272562010670 H-loop/switch region; other site 272562010671 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 272562010672 dimer interface [polypeptide binding]; other site 272562010673 conserved gate region; other site 272562010674 putative PBP binding loops; other site 272562010675 ABC-ATPase subunit interface; other site 272562010676 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 272562010677 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 272562010678 substrate binding pocket [chemical binding]; other site 272562010679 membrane-bound complex binding site; other site 272562010680 hinge residues; other site 272562010681 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 272562010682 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 272562010683 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 272562010684 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 272562010685 active site 272562010686 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 272562010687 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 272562010688 FeS/SAM binding site; other site 272562010689 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 272562010690 GTP cyclohydrolase I; Provisional; Region: PLN03044 272562010691 active site 272562010692 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 272562010693 Ligand Binding Site [chemical binding]; other site 272562010694 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 272562010695 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 272562010696 Walker A/P-loop; other site 272562010697 ATP binding site [chemical binding]; other site 272562010698 Q-loop/lid; other site 272562010699 ABC transporter signature motif; other site 272562010700 Walker B; other site 272562010701 D-loop; other site 272562010702 H-loop/switch region; other site 272562010703 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272562010704 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 272562010705 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 272562010706 Walker A/P-loop; other site 272562010707 ATP binding site [chemical binding]; other site 272562010708 Q-loop/lid; other site 272562010709 ABC transporter signature motif; other site 272562010710 Walker B; other site 272562010711 D-loop; other site 272562010712 H-loop/switch region; other site 272562010713 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272562010714 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 272562010715 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 272562010716 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 272562010717 dimer interface [polypeptide binding]; other site 272562010718 conserved gate region; other site 272562010719 putative PBP binding loops; other site 272562010720 ABC-ATPase subunit interface; other site 272562010721 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 272562010722 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 272562010723 dimer interface [polypeptide binding]; other site 272562010724 conserved gate region; other site 272562010725 putative PBP binding loops; other site 272562010726 ABC-ATPase subunit interface; other site 272562010727 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 272562010728 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 272562010729 peptide binding site [polypeptide binding]; other site 272562010730 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 272562010731 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 272562010732 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 272562010733 Walker A/P-loop; other site 272562010734 ATP binding site [chemical binding]; other site 272562010735 Q-loop/lid; other site 272562010736 ABC transporter signature motif; other site 272562010737 Walker B; other site 272562010738 D-loop; other site 272562010739 H-loop/switch region; other site 272562010740 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272562010741 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 272562010742 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 272562010743 Walker A/P-loop; other site 272562010744 ATP binding site [chemical binding]; other site 272562010745 Q-loop/lid; other site 272562010746 ABC transporter signature motif; other site 272562010747 Walker B; other site 272562010748 D-loop; other site 272562010749 H-loop/switch region; other site 272562010750 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272562010751 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 272562010752 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 272562010753 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 272562010754 dimer interface [polypeptide binding]; other site 272562010755 conserved gate region; other site 272562010756 putative PBP binding loops; other site 272562010757 ABC-ATPase subunit interface; other site 272562010758 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 272562010759 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 272562010760 dimer interface [polypeptide binding]; other site 272562010761 conserved gate region; other site 272562010762 putative PBP binding loops; other site 272562010763 ABC-ATPase subunit interface; other site 272562010764 Helix-turn-helix domains; Region: HTH; cl00088 272562010765 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 272562010766 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 272562010767 Walker A/P-loop; other site 272562010768 ATP binding site [chemical binding]; other site 272562010769 Q-loop/lid; other site 272562010770 ABC transporter signature motif; other site 272562010771 Walker B; other site 272562010772 D-loop; other site 272562010773 H-loop/switch region; other site 272562010774 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272562010775 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 272562010776 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 272562010777 Walker A/P-loop; other site 272562010778 ATP binding site [chemical binding]; other site 272562010779 Q-loop/lid; other site 272562010780 ABC transporter signature motif; other site 272562010781 Walker B; other site 272562010782 D-loop; other site 272562010783 H-loop/switch region; other site 272562010784 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272562010785 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 272562010786 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 272562010787 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 272562010788 dimer interface [polypeptide binding]; other site 272562010789 conserved gate region; other site 272562010790 putative PBP binding loops; other site 272562010791 ABC-ATPase subunit interface; other site 272562010792 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 272562010793 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 272562010794 dimer interface [polypeptide binding]; other site 272562010795 conserved gate region; other site 272562010796 putative PBP binding loops; other site 272562010797 ABC-ATPase subunit interface; other site 272562010798 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272562010799 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272562010800 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 272562010801 non-specific DNA binding site [nucleotide binding]; other site 272562010802 salt bridge; other site 272562010803 sequence-specific DNA binding site [nucleotide binding]; other site 272562010804 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 272562010805 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272562010806 Coenzyme A binding pocket [chemical binding]; other site 272562010807 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 272562010808 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272562010809 Coenzyme A binding pocket [chemical binding]; other site 272562010810 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 272562010811 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 272562010812 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 272562010813 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272562010814 Zn2+ binding site [ion binding]; other site 272562010815 Mg2+ binding site [ion binding]; other site 272562010816 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 272562010817 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272562010818 DNA-binding site [nucleotide binding]; DNA binding site 272562010819 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 272562010820 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272562010821 homodimer interface [polypeptide binding]; other site 272562010822 catalytic residue [active] 272562010823 acetolactate synthase; Reviewed; Region: PRK08322 272562010824 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 272562010825 PYR/PP interface [polypeptide binding]; other site 272562010826 dimer interface [polypeptide binding]; other site 272562010827 TPP binding site [chemical binding]; other site 272562010828 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 272562010829 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 272562010830 TPP-binding site [chemical binding]; other site 272562010831 dimer interface [polypeptide binding]; other site 272562010832 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 272562010833 metal-binding site [ion binding] 272562010834 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 272562010835 metal-binding site [ion binding] 272562010836 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 272562010837 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 272562010838 metal-binding site [ion binding] 272562010839 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272562010840 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272562010841 Uncharacterized family 2; belongs to a superfamily containing transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_2; cd10159 272562010842 putative homotetramer interface [polypeptide binding]; other site 272562010843 putative homodimer interface [polypeptide binding]; other site 272562010844 putative allosteric switch controlling residues; other site 272562010845 putative metal binding site [ion binding]; other site 272562010846 putative homodimer-homodimer interface [polypeptide binding]; other site 272562010847 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 272562010848 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 272562010849 tetrameric interface [polypeptide binding]; other site 272562010850 activator binding site; other site 272562010851 NADP binding site [chemical binding]; other site 272562010852 substrate binding site [chemical binding]; other site 272562010853 catalytic residues [active] 272562010854 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 272562010855 MgtC family; Region: MgtC; pfam02308 272562010856 Predicted RNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG2263 272562010857 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 272562010858 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 272562010859 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 272562010860 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 272562010861 Ligand binding site; other site 272562010862 Putative Catalytic site; other site 272562010863 DXD motif; other site 272562010864 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 272562010865 dimerization interface [polypeptide binding]; other site 272562010866 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 272562010867 dimer interface [polypeptide binding]; other site 272562010868 phosphorylation site [posttranslational modification] 272562010869 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 272562010870 ATP binding site [chemical binding]; other site 272562010871 Mg2+ binding site [ion binding]; other site 272562010872 G-X-G motif; other site 272562010873 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272562010874 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 272562010875 active site 272562010876 phosphorylation site [posttranslational modification] 272562010877 intermolecular recognition site; other site 272562010878 dimerization interface [polypeptide binding]; other site 272562010879 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 272562010880 DNA binding site [nucleotide binding] 272562010881 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272562010882 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 272562010883 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272562010884 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 272562010885 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 272562010886 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 272562010887 putative substrate translocation pore; other site 272562010888 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 272562010889 Helix-turn-helix domains; Region: HTH; cl00088 272562010890 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 272562010891 dimer interface [polypeptide binding]; other site 272562010892 conserved gate region; other site 272562010893 putative PBP binding loops; other site 272562010894 ABC-ATPase subunit interface; other site 272562010895 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 272562010896 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 272562010897 dimer interface [polypeptide binding]; other site 272562010898 conserved gate region; other site 272562010899 putative PBP binding loops; other site 272562010900 ABC-ATPase subunit interface; other site 272562010901 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272562010902 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 272562010903 Helix-turn-helix domains; Region: HTH; cl00088 272562010904 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 272562010905 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 272562010906 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 272562010907 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_30; cd04643 272562010908 DNA polymerase III subunit beta; Validated; Region: PRK06673 272562010909 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272562010910 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 272562010911 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 272562010912 active site 272562010913 phosphorylation site [posttranslational modification] 272562010914 intermolecular recognition site; other site 272562010915 dimerization interface [polypeptide binding]; other site 272562010916 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 272562010917 DNA binding site [nucleotide binding] 272562010918 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 272562010919 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 272562010920 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 272562010921 Ligand Binding Site [chemical binding]; other site 272562010922 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 272562010923 phosphorylation site [posttranslational modification] 272562010924 dimer interface [polypeptide binding]; other site 272562010925 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 272562010926 ATP binding site [chemical binding]; other site 272562010927 Mg2+ binding site [ion binding]; other site 272562010928 G-X-G motif; other site 272562010929 K+-transporting ATPase, c chain; Region: KdpC; cl00944 272562010930 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 272562010931 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272562010932 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272562010933 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 272562010934 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 272562010935 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 272562010936 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 272562010937 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272562010938 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 272562010939 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 272562010940 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 272562010941 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272562010942 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272562010943 Helix-turn-helix domains; Region: HTH; cl00088 272562010944 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 272562010945 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272562010946 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272562010947 dimer interface [polypeptide binding]; other site 272562010948 putative CheW interface [polypeptide binding]; other site 272562010949 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 272562010950 dimer interface [polypeptide binding]; other site 272562010951 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272562010952 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_4; cd08897 272562010953 putative hydrophobic ligand binding site [chemical binding]; other site 272562010954 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; cl02325 272562010955 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 272562010956 binding surface 272562010957 TPR motif; other site 272562010958 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272562010959 Predicted membrane protein [Function unknown]; Region: COG1511 272562010960 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 272562010961 SUKH-3 immunity protein; Region: SUKH-3; pfam14433 272562010962 SUKH-3 immunity protein; Region: SUKH-3; pfam14433 272562010963 SUKH-3 immunity protein; Region: SUKH-3; pfam14433 272562010964 NAD+--asparagine ADP-ribosyltransferase [Signal transduction mechanisms]; Region: COG5585 272562010965 Osteopetrosis-associated transmembrane protein 1 precursor; Region: OSTMP1; pfam09777 272562010966 LXG domain of WXG superfamily; Region: LXG; pfam04740 272562010967 NAD+--asparagine ADP-ribosyltransferase [Signal transduction mechanisms]; Region: COG5585 272562010968 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4495 272562010969 Domain of unknown function (DUF4176); Region: DUF4176; cl01867 272562010970 type VII secretion protein EssC, C-terminal domain; Region: T7_EssCb_Firm; TIGR03928 272562010971 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562010972 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272562010973 WXG100 protein secretion system (Wss), protein YukC; Region: YukC; cl01868 272562010974 Ubiquitin-like proteins; Region: UBQ; cl00155 272562010975 WXG100 protein secretion system (Wss), protein EssA; Region: EssA; cl11266 272562010976 Proteins of 100 residues with WXG; Region: WXG100; cl02005 272562010977 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 272562010978 putative dimer interface [polypeptide binding]; other site 272562010979 replicative DNA helicase; Provisional; Region: PRK05595 272562010980 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 272562010981 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 272562010982 Walker A motif; other site 272562010983 ATP binding site [chemical binding]; other site 272562010984 Walker B motif; other site 272562010985 DNA binding loops [nucleotide binding] 272562010986 ATP-dependent protease, Lon family; Region: spore_lon_C; TIGR02903 272562010987 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 272562010988 Walker A motif; other site 272562010989 ATP binding site [chemical binding]; other site 272562010990 Walker B motif; other site 272562010991 arginine finger; other site 272562010992 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 272562010993 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 272562010994 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 272562010995 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 272562010996 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 272562010997 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 272562010998 DHH family; Region: DHH; pfam01368 272562010999 DHHA1 domain; Region: DHHA1; pfam02272 272562011000 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 272562011001 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 272562011002 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 272562011003 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 272562011004 dimer interface [polypeptide binding]; other site 272562011005 ssDNA binding site [nucleotide binding]; other site 272562011006 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272562011007 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 272562011008 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 272562011009 Mechanosensitive ion channel; Region: MS_channel; pfam00924 272562011010 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 272562011011 ParB-like nuclease domain; Region: ParBc; cl02129 272562011012 ParB-like partition proteins; Region: parB_part; TIGR00180 272562011013 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 272562011014 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 272562011015 P-loop; other site 272562011016 Magnesium ion binding site [ion binding]; other site 272562011017 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 272562011018 Magnesium ion binding site [ion binding]; other site 272562011019 ParB-like nuclease domain; Region: ParBc; cl02129 272562011020 ParB-like partition proteins; Region: parB_part; TIGR00180 272562011021 Methyltransferase domain; Region: Methyltransf_31; pfam13847 272562011022 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 272562011023 S-adenosylmethionine binding site [chemical binding]; other site 272562011024 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 272562011025 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272562011026 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 272562011027 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 272562011028 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 272562011029 trmE is a tRNA modification GTPase; Region: trmE; cd04164 272562011030 G1 box; other site 272562011031 GTP/Mg2+ binding site [chemical binding]; other site 272562011032 Switch I region; other site 272562011033 G2 box; other site 272562011034 Switch II region; other site 272562011035 G3 box; other site 272562011036 G4 box; other site 272562011037 G5 box; other site 272562011038 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 272562011039 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 272562011040 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 272562011041 G-X-X-G motif; other site 272562011042 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 272562011043 RxxxH motif; other site 272562011044 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 272562011045 Domain of unknown function DUF37; Region: DUF37; cl00506 272562011046 Ribonuclease P; Region: Ribonuclease_P; cl00457 272562011047 Ribosomal protein L34; Region: Ribosomal_L34; cl00370