-- dump date 20140619_232555 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1408206000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1408206000002 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 1408206000003 Walker A motif; other site 1408206000004 ATP binding site [chemical binding]; other site 1408206000005 Walker B motif; other site 1408206000006 arginine finger; other site 1408206000007 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 1408206000008 DnaA box-binding interface [nucleotide binding]; other site 1408206000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 1408206000010 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 1408206000011 putative DNA binding surface [nucleotide binding]; other site 1408206000012 dimer interface [polypeptide binding]; other site 1408206000013 beta-clamp/clamp loader binding surface; other site 1408206000014 beta-clamp/translesion DNA polymerase binding surface; other site 1408206000015 S4 domain protein YaaA; Region: YaaA_near_RecF; TIGR02988 1408206000016 recombination protein F; Reviewed; Region: recF; PRK00064 1408206000017 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 1408206000018 Walker A/P-loop; other site 1408206000019 ATP binding site [chemical binding]; other site 1408206000020 Q-loop/lid; other site 1408206000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408206000022 ABC transporter signature motif; other site 1408206000023 Walker B; other site 1408206000024 D-loop; other site 1408206000025 H-loop/switch region; other site 1408206000026 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1408206000027 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 1408206000028 Mg2+ binding site [ion binding]; other site 1408206000029 G-X-G motif; other site 1408206000030 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 1408206000031 anchoring element; other site 1408206000032 dimer interface [polypeptide binding]; other site 1408206000033 ATP binding site [chemical binding]; other site 1408206000034 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 1408206000035 active site 1408206000036 metal binding site [ion binding]; metal-binding site 1408206000037 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1408206000038 DNA gyrase subunit A; Validated; Region: PRK05560 1408206000039 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 1408206000040 CAP-like domain; other site 1408206000041 active site 1408206000042 primary dimer interface [polypeptide binding]; other site 1408206000043 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1408206000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1408206000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1408206000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1408206000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1408206000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1408206000049 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1408206000050 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1408206000051 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 1408206000052 dimer interface [polypeptide binding]; other site 1408206000053 ssDNA binding site [nucleotide binding]; other site 1408206000054 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1408206000055 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1408206000056 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 1408206000057 PAS domain; Region: PAS; smart00091 1408206000058 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1408206000059 DHH family; Region: DHH; pfam01368 1408206000060 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1408206000061 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1408206000062 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1408206000063 replicative DNA helicase; Provisional; Region: PRK05748 1408206000064 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1408206000065 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 1408206000066 Walker A motif; other site 1408206000067 ATP binding site [chemical binding]; other site 1408206000068 Walker B motif; other site 1408206000069 DNA binding loops [nucleotide binding] 1408206000070 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 1408206000071 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1408206000072 putative substrate translocation pore; other site 1408206000073 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 1408206000074 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1408206000075 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1408206000076 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1408206000077 ABC transporter; Region: ABC_tran_2; pfam12848 1408206000078 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1408206000079 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1408206000080 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1408206000081 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1408206000082 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1408206000083 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1408206000084 Walker A/P-loop; other site 1408206000085 ATP binding site [chemical binding]; other site 1408206000086 Q-loop/lid; other site 1408206000087 ABC transporter signature motif; other site 1408206000088 Walker B; other site 1408206000089 D-loop; other site 1408206000090 H-loop/switch region; other site 1408206000091 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 1408206000092 Sterol carrier protein domain; Region: SCP2_2; pfam13530 1408206000093 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1408206000094 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1408206000095 Predicted transcriptional regulators [Transcription]; Region: COG1733 1408206000096 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1408206000097 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 1408206000098 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1408206000099 active site 1408206000100 catalytic tetrad [active] 1408206000101 Predicted flavoprotein [General function prediction only]; Region: COG0431 1408206000102 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1408206000103 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 1408206000104 dimerization interface [polypeptide binding]; other site 1408206000105 putative DNA binding site [nucleotide binding]; other site 1408206000106 putative Zn2+ binding site [ion binding]; other site 1408206000107 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 1408206000108 Cadmium resistance transporter; Region: Cad; pfam03596 1408206000109 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1408206000110 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1408206000111 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1408206000112 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1408206000113 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1408206000114 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 1408206000115 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1408206000116 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1408206000117 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 1408206000118 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 1408206000119 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1408206000120 Haemolysin-III related; Region: HlyIII; cl03831 1408206000121 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1408206000122 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 1408206000123 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1408206000124 Coenzyme A binding pocket [chemical binding]; other site 1408206000125 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1408206000126 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1408206000127 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; pfam10110 1408206000128 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1408206000129 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 1408206000130 putative active site [active] 1408206000131 catalytic site [active] 1408206000132 putative metal binding site [ion binding]; other site 1408206000133 Colicin V production protein; Region: Colicin_V; pfam02674 1408206000134 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 1408206000135 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 1408206000136 manganese transport protein MntH; Reviewed; Region: PRK00701 1408206000137 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1408206000138 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1408206000139 Ligand Binding Site [chemical binding]; other site 1408206000140 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1408206000141 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1408206000142 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1408206000143 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1408206000144 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 1408206000145 dimerization interface [polypeptide binding]; other site 1408206000146 maltose O-acetyltransferase; Provisional; Region: PRK10092 1408206000147 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 1408206000148 trimer interface [polypeptide binding]; other site 1408206000149 active site 1408206000150 substrate binding site [chemical binding]; other site 1408206000151 CoA binding site [chemical binding]; other site 1408206000152 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1408206000153 classical (c) SDRs; Region: SDR_c; cd05233 1408206000154 NAD(P) binding site [chemical binding]; other site 1408206000155 active site 1408206000156 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 1408206000157 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1408206000158 active site 1408206000159 catalytic tetrad [active] 1408206000160 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1408206000161 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408206000162 Walker A/P-loop; other site 1408206000163 ATP binding site [chemical binding]; other site 1408206000164 Q-loop/lid; other site 1408206000165 ABC transporter signature motif; other site 1408206000166 Walker B; other site 1408206000167 D-loop; other site 1408206000168 H-loop/switch region; other site 1408206000169 Predicted transcriptional regulators [Transcription]; Region: COG1725 1408206000170 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1408206000171 DNA-binding site [nucleotide binding]; DNA binding site 1408206000172 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 1408206000173 Double zinc ribbon; Region: DZR; pfam12773 1408206000174 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1408206000175 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 1408206000176 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 1408206000177 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 1408206000178 active site 1408206000179 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 1408206000180 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 1408206000181 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1408206000182 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1408206000183 DNA binding residues [nucleotide binding] 1408206000184 putative dimer interface [polypeptide binding]; other site 1408206000185 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 1408206000186 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1408206000187 active site 1408206000188 catalytic tetrad [active] 1408206000189 accessory Sec system translocase SecA2; Region: secA2; TIGR03714 1408206000190 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 1408206000191 accessory Sec system protein Asp1; Region: acc_sec_asp1; TIGR03713 1408206000192 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 1408206000193 accessory Sec system protein Asp2; Region: acc_sec_asp2; TIGR03712 1408206000194 accessory Sec system protein Asp3; Region: acc_sec_asp3; TIGR03711 1408206000195 Cna protein B-type domain; Region: Cna_B; pfam05738 1408206000196 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1408206000197 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 1408206000198 Glucosyl transferase GtrII; Region: Glucos_trans_II; cl10304 1408206000199 glucose-1-dehydrogenase; Provisional; Region: PRK08936 1408206000200 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 1408206000201 NAD binding site [chemical binding]; other site 1408206000202 homodimer interface [polypeptide binding]; other site 1408206000203 active site 1408206000204 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 1408206000205 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1408206000206 active site 1408206000207 catalytic tetrad [active] 1408206000208 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 1408206000209 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1408206000210 catalytic Zn binding site [ion binding]; other site 1408206000211 NAD(P) binding site [chemical binding]; other site 1408206000212 structural Zn binding site [ion binding]; other site 1408206000213 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 1408206000214 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1408206000215 intersubunit interface [polypeptide binding]; other site 1408206000216 putative acetyltransferase YhhY; Provisional; Region: PRK10140 1408206000217 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1408206000218 Coenzyme A binding pocket [chemical binding]; other site 1408206000219 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 1408206000220 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1408206000221 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 1408206000222 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1408206000223 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 1408206000224 transcriptional regulator MurR; Provisional; Region: PRK15482 1408206000225 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1408206000226 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 1408206000227 putative active site [active] 1408206000228 putative oxidoreductase; Provisional; Region: PRK10206 1408206000229 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1408206000230 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1408206000231 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1408206000232 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1408206000233 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1408206000234 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 1408206000235 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1408206000236 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1408206000237 DNA binding residues [nucleotide binding] 1408206000238 putative dimer interface [polypeptide binding]; other site 1408206000239 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1408206000240 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1408206000241 NAD(P) binding site [chemical binding]; other site 1408206000242 active site 1408206000243 maltose O-acetyltransferase; Provisional; Region: PRK10092 1408206000244 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 1408206000245 active site 1408206000246 substrate binding site [chemical binding]; other site 1408206000247 trimer interface [polypeptide binding]; other site 1408206000248 CoA binding site [chemical binding]; other site 1408206000249 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1408206000250 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 1408206000251 Int/Topo IB signature motif; other site 1408206000252 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 1408206000253 Divergent AAA domain; Region: AAA_4; pfam04326 1408206000254 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 1408206000255 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 1408206000256 putative Zn2+ binding site [ion binding]; other site 1408206000257 putative DNA binding site [nucleotide binding]; other site 1408206000258 Domain of unknown function (DUF955); Region: DUF955; cl01076 1408206000259 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 1408206000260 non-specific DNA binding site [nucleotide binding]; other site 1408206000261 salt bridge; other site 1408206000262 sequence-specific DNA binding site [nucleotide binding]; other site 1408206000263 Uncharacterized phage-encoded protein [Function unknown]; Region: COG3646 1408206000264 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1408206000265 Helix-turn-helix domain; Region: HTH_17; cl17695 1408206000266 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 1408206000267 polymerase nucleotide-binding site; other site 1408206000268 DNA-binding residues [nucleotide binding]; DNA binding site 1408206000269 nucleotide binding site [chemical binding]; other site 1408206000270 primase nucleotide-binding site [nucleotide binding]; other site 1408206000271 Primase C terminal 1 (PriCT-1); Region: PriCT_1; smart00942 1408206000272 D5 N terminal like; Region: D5_N; smart00885 1408206000273 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 1408206000274 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1408206000275 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1408206000276 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1408206000277 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1408206000278 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1408206000279 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1408206000280 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1408206000281 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 1408206000282 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 1408206000283 catalytic residues [active] 1408206000284 N-glycosyltransferase; Provisional; Region: PRK11204 1408206000285 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1408206000286 DXD motif; other site 1408206000287 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1408206000288 beta-galactosidase; Region: BGL; TIGR03356 1408206000289 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1408206000290 hypothetical protein; Provisional; Region: PRK07329 1408206000291 active site 1408206000292 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 1408206000293 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 1408206000294 metal binding site [ion binding]; metal-binding site 1408206000295 dimer interface [polypeptide binding]; other site 1408206000296 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 1408206000297 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1408206000298 active site 1408206000299 catalytic tetrad [active] 1408206000300 galactokinase; Provisional; Region: PRK05322 1408206000301 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1408206000302 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1408206000303 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1408206000304 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1408206000305 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 1408206000306 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 1408206000307 MucBP domain; Region: MucBP; pfam06458 1408206000308 MucBP domain; Region: MucBP; pfam06458 1408206000309 MucBP domain; Region: MucBP; pfam06458 1408206000310 MucBP domain; Region: MucBP; pfam06458 1408206000311 MucBP domain; Region: MucBP; pfam06458 1408206000312 MucBP domain; Region: MucBP; pfam06458 1408206000313 MucBP domain; Region: MucBP; pfam06458 1408206000314 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1408206000315 CCC1-related family of proteins; Region: CCC1_like; cl00278 1408206000316 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 1408206000317 LytTr DNA-binding domain; Region: LytTR; smart00850 1408206000318 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1408206000319 Beta-lactamase; Region: Beta-lactamase; pfam00144 1408206000320 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1408206000321 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1408206000322 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1408206000323 DXD motif; other site 1408206000324 Collagen binding domain; Region: Collagen_bind; pfam05737 1408206000325 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 1408206000326 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1408206000327 putative substrate translocation pore; other site 1408206000328 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 1408206000329 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1408206000330 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1408206000331 aromatic amino acid aminotransferase; Validated; Region: PRK07309 1408206000332 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 1408206000333 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1408206000334 homodimer interface [polypeptide binding]; other site 1408206000335 catalytic residue [active] 1408206000336 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1408206000337 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1408206000338 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1408206000339 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1408206000340 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1408206000341 dimer interface [polypeptide binding]; other site 1408206000342 active site 1408206000343 catalytic residue [active] 1408206000344 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 1408206000345 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1408206000346 metal binding site [ion binding]; metal-binding site 1408206000347 putative dimer interface [polypeptide binding]; other site 1408206000348 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 1408206000349 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 1408206000350 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 1408206000351 putative trimer interface [polypeptide binding]; other site 1408206000352 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 1408206000353 putative trimer interface [polypeptide binding]; other site 1408206000354 putative CoA binding site [chemical binding]; other site 1408206000355 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1408206000356 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1408206000357 active site 1408206000358 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1408206000359 substrate binding site [chemical binding]; other site 1408206000360 catalytic residues [active] 1408206000361 dimer interface [polypeptide binding]; other site 1408206000362 aspartate kinase; Reviewed; Region: PRK09034 1408206000363 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 1408206000364 putative catalytic residues [active] 1408206000365 putative nucleotide binding site [chemical binding]; other site 1408206000366 putative aspartate binding site [chemical binding]; other site 1408206000367 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 1408206000368 allosteric regulatory residue; other site 1408206000369 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 1408206000370 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1408206000371 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1408206000372 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1408206000373 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1408206000374 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 1408206000375 putative substrate translocation pore; other site 1408206000376 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1408206000377 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1408206000378 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 1408206000379 putative active site [active] 1408206000380 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1408206000381 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 1408206000382 putative substrate binding site [chemical binding]; other site 1408206000383 putative ATP binding site [chemical binding]; other site 1408206000384 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 1408206000385 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 1408206000386 active site 1408206000387 P-loop; other site 1408206000388 phosphorylation site [posttranslational modification] 1408206000389 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1408206000390 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 1408206000391 active site 1408206000392 phosphorylation site [posttranslational modification] 1408206000393 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12399 1408206000394 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 1408206000395 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1408206000396 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1408206000397 oligomer interface [polypeptide binding]; other site 1408206000398 Cl binding site [ion binding]; other site 1408206000399 oxidoreductase; Provisional; Region: PRK07985 1408206000400 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1408206000401 NAD(P) binding site [chemical binding]; other site 1408206000402 active site 1408206000403 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4876 1408206000404 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 1408206000405 MgtC family; Region: MgtC; pfam02308 1408206000406 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 1408206000407 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 1408206000408 active site 1408206000409 phosphorylation site [posttranslational modification] 1408206000410 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1408206000411 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 1408206000412 putative active site [active] 1408206000413 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1408206000414 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 1408206000415 putative active site [active] 1408206000416 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1408206000417 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1408206000418 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1408206000419 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 1408206000420 putative active site [active] 1408206000421 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 1408206000422 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 1408206000423 putative active site cavity [active] 1408206000424 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1408206000425 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1408206000426 nucleotide binding site [chemical binding]; other site 1408206000427 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1408206000428 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1408206000429 Class I aldolases; Region: Aldolase_Class_I; cl17187 1408206000430 catalytic residue [active] 1408206000431 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 1408206000432 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1408206000433 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1408206000434 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1408206000435 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1408206000436 DNA-binding site [nucleotide binding]; DNA binding site 1408206000437 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 1408206000438 putative dimerization interface [polypeptide binding]; other site 1408206000439 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 1408206000440 putative ligand binding site [chemical binding]; other site 1408206000441 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1408206000442 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1408206000443 DNA-binding site [nucleotide binding]; DNA binding site 1408206000444 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1408206000445 Coenzyme A binding pocket [chemical binding]; other site 1408206000446 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 1408206000447 active site 1408206000448 tetramer interface [polypeptide binding]; other site 1408206000449 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 1408206000450 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 1408206000451 putative substrate translocation pore; other site 1408206000452 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 1408206000453 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 1408206000454 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1408206000455 putative N- and C-terminal domain interface [polypeptide binding]; other site 1408206000456 putative active site [active] 1408206000457 MgATP binding site [chemical binding]; other site 1408206000458 catalytic site [active] 1408206000459 metal binding site [ion binding]; metal-binding site 1408206000460 putative carbohydrate binding site [chemical binding]; other site 1408206000461 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1408206000462 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 1408206000463 intersubunit interface [polypeptide binding]; other site 1408206000464 active site 1408206000465 Zn2+ binding site [ion binding]; other site 1408206000466 L-arabinose isomerase; Provisional; Region: PRK02929 1408206000467 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 1408206000468 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1408206000469 trimer interface [polypeptide binding]; other site 1408206000470 substrate binding site [chemical binding]; other site 1408206000471 Mn binding site [ion binding]; other site 1408206000472 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1408206000473 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1408206000474 hexamer interface [polypeptide binding]; other site 1408206000475 ligand binding site [chemical binding]; other site 1408206000476 putative active site [active] 1408206000477 NAD(P) binding site [chemical binding]; other site 1408206000478 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1408206000479 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1408206000480 tetramer interface [polypeptide binding]; other site 1408206000481 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1408206000482 catalytic residue [active] 1408206000483 OPT oligopeptide transporter protein; Region: OPT; pfam03169 1408206000484 putative oligopeptide transporter, OPT family; Region: TIGR00733 1408206000485 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 1408206000486 Peptidase family C69; Region: Peptidase_C69; pfam03577 1408206000487 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1408206000488 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 1408206000489 catalytic Zn binding site [ion binding]; other site 1408206000490 NAD binding site [chemical binding]; other site 1408206000491 structural Zn binding site [ion binding]; other site 1408206000492 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1408206000493 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1408206000494 nucleotide binding site [chemical binding]; other site 1408206000495 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 1408206000496 active site 1408206000497 phosphorylation site [posttranslational modification] 1408206000498 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 1408206000499 active site 1408206000500 P-loop; other site 1408206000501 phosphorylation site [posttranslational modification] 1408206000502 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 1408206000503 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1408206000504 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 1408206000505 TPP-binding site [chemical binding]; other site 1408206000506 dimer interface [polypeptide binding]; other site 1408206000507 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 1408206000508 PYR/PP interface [polypeptide binding]; other site 1408206000509 dimer interface [polypeptide binding]; other site 1408206000510 TPP binding site [chemical binding]; other site 1408206000511 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1408206000512 putative translaldolase; Provisional; Region: PRK12376 1408206000513 catalytic residue [active] 1408206000514 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1408206000515 PRD domain; Region: PRD; pfam00874 1408206000516 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 1408206000517 active site 1408206000518 P-loop; other site 1408206000519 phosphorylation site [posttranslational modification] 1408206000520 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 1408206000521 active site 1408206000522 phosphorylation site [posttranslational modification] 1408206000523 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1408206000524 CAT RNA binding domain; Region: CAT_RBD; pfam03123 1408206000525 PRD domain; Region: PRD; pfam00874 1408206000526 PRD domain; Region: PRD; pfam00874 1408206000527 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1408206000528 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 1408206000529 active site turn [active] 1408206000530 phosphorylation site [posttranslational modification] 1408206000531 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl17885 1408206000532 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 1408206000533 HPr interaction site; other site 1408206000534 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1408206000535 active site 1408206000536 phosphorylation site [posttranslational modification] 1408206000537 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1408206000538 beta-galactosidase; Region: BGL; TIGR03356 1408206000539 putative alpha-glucosidase; Provisional; Region: PRK10658 1408206000540 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1408206000541 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 1408206000542 active site 1408206000543 homotrimer interface [polypeptide binding]; other site 1408206000544 catalytic site [active] 1408206000545 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 1408206000546 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 1408206000547 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 1408206000548 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1408206000549 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1408206000550 nucleotide binding site [chemical binding]; other site 1408206000551 xylose isomerase; Provisional; Region: PRK05474 1408206000552 xylose isomerase; Region: xylose_isom_A; TIGR02630 1408206000553 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1408206000554 N- and C-terminal domain interface [polypeptide binding]; other site 1408206000555 D-xylulose kinase; Region: XylB; TIGR01312 1408206000556 active site 1408206000557 MgATP binding site [chemical binding]; other site 1408206000558 catalytic site [active] 1408206000559 metal binding site [ion binding]; metal-binding site 1408206000560 xylulose binding site [chemical binding]; other site 1408206000561 homodimer interface [polypeptide binding]; other site 1408206000562 putrescine carbamoyltransferase; Provisional; Region: PRK02255 1408206000563 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1408206000564 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1408206000565 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1408206000566 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1408206000567 agmatine deiminase; Provisional; Region: PRK13551 1408206000568 agmatine deiminase; Region: agmatine_aguA; TIGR03380 1408206000569 carbamate kinase; Reviewed; Region: PRK12686 1408206000570 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1408206000571 putative substrate binding site [chemical binding]; other site 1408206000572 nucleotide binding site [chemical binding]; other site 1408206000573 nucleotide binding site [chemical binding]; other site 1408206000574 homodimer interface [polypeptide binding]; other site 1408206000575 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 1408206000576 agmatine deiminase; Region: agmatine_aguA; TIGR03380 1408206000577 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1408206000578 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1408206000579 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 1408206000580 putative active site [active] 1408206000581 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 1408206000582 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1408206000583 Walker A motif; other site 1408206000584 ATP binding site [chemical binding]; other site 1408206000585 Walker B motif; other site 1408206000586 arginine finger; other site 1408206000587 Transcriptional antiterminator [Transcription]; Region: COG3933 1408206000588 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 1408206000589 active pocket/dimerization site; other site 1408206000590 active site 1408206000591 phosphorylation site [posttranslational modification] 1408206000592 PRD domain; Region: PRD; pfam00874 1408206000593 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 1408206000594 active pocket/dimerization site; other site 1408206000595 active site 1408206000596 phosphorylation site [posttranslational modification] 1408206000597 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 1408206000598 active site 1408206000599 phosphorylation site [posttranslational modification] 1408206000600 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 1408206000601 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 1408206000602 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1408206000603 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 1408206000604 putative active site [active] 1408206000605 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 1408206000606 dimer interface [polypeptide binding]; other site 1408206000607 active site 1408206000608 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1408206000609 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 1408206000610 motif II; other site 1408206000611 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1408206000612 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1408206000613 DNA binding site [nucleotide binding] 1408206000614 domain linker motif; other site 1408206000615 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 1408206000616 putative dimerization interface [polypeptide binding]; other site 1408206000617 putative ligand binding site [chemical binding]; other site 1408206000618 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1408206000619 active site 1408206000620 catalytic residues [active] 1408206000621 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 1408206000622 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 1408206000623 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 1408206000624 HPr interaction site; other site 1408206000625 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1408206000626 active site 1408206000627 phosphorylation site [posttranslational modification] 1408206000628 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 1408206000629 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1408206000630 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1408206000631 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1408206000632 galactokinase; Provisional; Region: PRK05322 1408206000633 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1408206000634 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1408206000635 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1408206000636 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1408206000637 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1408206000638 NAD binding site [chemical binding]; other site 1408206000639 homodimer interface [polypeptide binding]; other site 1408206000640 active site 1408206000641 substrate binding site [chemical binding]; other site 1408206000642 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 1408206000643 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 1408206000644 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 1408206000645 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1408206000646 Class II fumarases; Region: Fumarase_classII; cd01362 1408206000647 active site 1408206000648 tetramer interface [polypeptide binding]; other site 1408206000649 Peptidyl-prolyl cis-trans isomerase (rotamase) - cyclophilin family [Posttranslational modification, protein turnover, chaperones]; Region: PpiB; COG0652 1408206000650 active site 1408206000651 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1408206000652 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1408206000653 active site 1408206000654 nucleophile elbow; other site 1408206000655 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 1408206000656 putative substrate translocation pore; other site 1408206000657 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 1408206000658 HTH domain; Region: HTH_11; pfam08279 1408206000659 3H domain; Region: 3H; pfam02829 1408206000660 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 1408206000661 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1408206000662 Ligand binding site; other site 1408206000663 metal-binding site 1408206000664 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 1408206000665 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1408206000666 Ligand binding site; other site 1408206000667 metal-binding site 1408206000668 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1408206000669 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1408206000670 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 1408206000671 NAD binding site [chemical binding]; other site 1408206000672 dimer interface [polypeptide binding]; other site 1408206000673 substrate binding site [chemical binding]; other site 1408206000674 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 1408206000675 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1408206000676 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 1408206000677 putative active site [active] 1408206000678 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1408206000679 active site 1408206000680 catalytic residues [active] 1408206000681 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1408206000682 EamA-like transporter family; Region: EamA; cl17759 1408206000683 EamA-like transporter family; Region: EamA; pfam00892 1408206000684 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 1408206000685 This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In...; Region: GT1_gtfA_like; cd04949 1408206000686 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1408206000687 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 1408206000688 This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In...; Region: GT1_gtfA_like; cd04949 1408206000689 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1408206000690 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 1408206000691 dimer interface [polypeptide binding]; other site 1408206000692 FMN binding site [chemical binding]; other site 1408206000693 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 1408206000694 dimer interface [polypeptide binding]; other site 1408206000695 substrate binding site [chemical binding]; other site 1408206000696 ATP binding site [chemical binding]; other site 1408206000697 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cd00741 1408206000698 nucleophilic elbow; other site 1408206000699 catalytic triad; other site 1408206000700 Uncharacterized conserved protein [Function unknown]; Region: COG3589 1408206000701 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 1408206000702 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1408206000703 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1408206000704 atypical (a) SDRs, subgroup 6; Region: SDR_a6; cd05267 1408206000705 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1408206000706 putative NAD(P) binding site [chemical binding]; other site 1408206000707 dipeptidase PepV; Reviewed; Region: PRK07318 1408206000708 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 1408206000709 active site 1408206000710 metal binding site [ion binding]; metal-binding site 1408206000711 T-box leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408206000712 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 1408206000713 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1408206000714 active site 1408206000715 HIGH motif; other site 1408206000716 dimer interface [polypeptide binding]; other site 1408206000717 KMSKS motif; other site 1408206000718 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 1408206000719 RNA binding surface [nucleotide binding]; other site 1408206000720 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1408206000721 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1408206000722 Na binding site [ion binding]; other site 1408206000723 cytosine deaminase; Provisional; Region: PRK09230 1408206000724 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 1408206000725 active site 1408206000726 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 1408206000727 ABC-ATPase subunit interface; other site 1408206000728 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1408206000729 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1408206000730 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408206000731 Walker A/P-loop; other site 1408206000732 ATP binding site [chemical binding]; other site 1408206000733 Q-loop/lid; other site 1408206000734 ABC transporter signature motif; other site 1408206000735 Walker B; other site 1408206000736 D-loop; other site 1408206000737 H-loop/switch region; other site 1408206000738 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 1408206000739 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1408206000740 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1408206000741 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1408206000742 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1408206000743 pyruvate carboxylase; Reviewed; Region: PRK12999 1408206000744 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1408206000745 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1408206000746 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1408206000747 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1408206000748 active site 1408206000749 catalytic residues [active] 1408206000750 metal binding site [ion binding]; metal-binding site 1408206000751 homodimer binding site [polypeptide binding]; other site 1408206000752 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 1408206000753 carboxyltransferase (CT) interaction site; other site 1408206000754 biotinylation site [posttranslational modification]; other site 1408206000755 aspartate aminotransferase; Provisional; Region: PRK05764 1408206000756 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 1408206000757 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1408206000758 homodimer interface [polypeptide binding]; other site 1408206000759 catalytic residue [active] 1408206000760 Protein of unknown function (DUF554); Region: DUF554; pfam04474 1408206000761 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1408206000762 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1408206000763 putative NAD(P) binding site [chemical binding]; other site 1408206000764 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 1408206000765 Part of AAA domain; Region: AAA_19; pfam13245 1408206000766 Family description; Region: UvrD_C_2; pfam13538 1408206000767 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1408206000768 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1408206000769 active site 1408206000770 HIGH motif; other site 1408206000771 dimer interface [polypeptide binding]; other site 1408206000772 KMSKS motif; other site 1408206000773 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1408206000774 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1408206000775 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 1408206000776 homodimer interface [polypeptide binding]; other site 1408206000777 catalytic residues [active] 1408206000778 NAD binding site [chemical binding]; other site 1408206000779 substrate binding pocket [chemical binding]; other site 1408206000780 flexible flap; other site 1408206000781 PspC domain; Region: PspC; pfam04024 1408206000782 Protein of unknown function DUF72; Region: DUF72; pfam01904 1408206000783 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 1408206000784 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1408206000785 HIGH motif; other site 1408206000786 active site 1408206000787 KMSKS motif; other site 1408206000788 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1408206000789 tRNA binding surface [nucleotide binding]; other site 1408206000790 anticodon binding site; other site 1408206000791 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 1408206000792 dimer interface [polypeptide binding]; other site 1408206000793 putative tRNA-binding site [nucleotide binding]; other site 1408206000794 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1408206000795 active site 1408206000796 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 1408206000797 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 1408206000798 putative active site [active] 1408206000799 putative metal binding site [ion binding]; other site 1408206000800 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 1408206000801 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1408206000802 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1408206000803 S-adenosylmethionine binding site [chemical binding]; other site 1408206000804 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 1408206000805 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 1408206000806 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1408206000807 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1408206000808 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1408206000809 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 1408206000810 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1408206000811 Ligand Binding Site [chemical binding]; other site 1408206000812 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1408206000813 Ligand Binding Site [chemical binding]; other site 1408206000814 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 1408206000815 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1408206000816 putative substrate translocation pore; other site 1408206000817 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 1408206000818 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1408206000819 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408206000820 Walker A/P-loop; other site 1408206000821 ATP binding site [chemical binding]; other site 1408206000822 Q-loop/lid; other site 1408206000823 ABC transporter signature motif; other site 1408206000824 Walker B; other site 1408206000825 D-loop; other site 1408206000826 H-loop/switch region; other site 1408206000827 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 1408206000828 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1408206000829 TM-ABC transporter signature motif; other site 1408206000830 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1408206000831 zinc binding site [ion binding]; other site 1408206000832 putative ligand binding site [chemical binding]; other site 1408206000833 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1408206000834 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1408206000835 DNA-binding site [nucleotide binding]; DNA binding site 1408206000836 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1408206000837 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 1408206000838 active site 1408206000839 P-loop; other site 1408206000840 phosphorylation site [posttranslational modification] 1408206000841 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 1408206000842 active site 1408206000843 methionine cluster; other site 1408206000844 phosphorylation site [posttranslational modification] 1408206000845 metal binding site [ion binding]; metal-binding site 1408206000846 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1408206000847 beta-galactosidase; Region: BGL; TIGR03356 1408206000848 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1408206000849 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1408206000850 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 1408206000851 putative active site [active] 1408206000852 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 1408206000853 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1408206000854 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1408206000855 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 1408206000856 putative uracil binding site [chemical binding]; other site 1408206000857 putative active site [active] 1408206000858 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 1408206000859 Sterol carrier protein domain; Region: SCP2_2; pfam13530 1408206000860 Metal binding protein TroA_b. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: TroA_b; cd01020 1408206000861 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1408206000862 metal binding site [ion binding]; metal-binding site 1408206000863 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1408206000864 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1408206000865 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1408206000866 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 1408206000867 ABC-ATPase subunit interface; other site 1408206000868 dimer interface [polypeptide binding]; other site 1408206000869 putative PBP binding regions; other site 1408206000870 pur operon repressor; Provisional; Region: PRK09213 1408206000871 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 1408206000872 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1408206000873 active site 1408206000874 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 1408206000875 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1408206000876 Substrate binding site; other site 1408206000877 Mg++ binding site; other site 1408206000878 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 1408206000879 active site 1408206000880 substrate binding site [chemical binding]; other site 1408206000881 CoA binding site [chemical binding]; other site 1408206000882 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1408206000883 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1408206000884 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1408206000885 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1408206000886 active site 1408206000887 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1408206000888 Double zinc ribbon; Region: DZR; pfam12773 1408206000889 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 1408206000890 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 1408206000891 amphipathic channel; other site 1408206000892 Asn-Pro-Ala signature motifs; other site 1408206000893 Ion transport protein; Region: Ion_trans; pfam00520 1408206000894 Ion channel; Region: Ion_trans_2; pfam07885 1408206000895 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1408206000896 active site 1408206000897 homotetramer interface [polypeptide binding]; other site 1408206000898 homodimer interface [polypeptide binding]; other site 1408206000899 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1408206000900 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1408206000901 active site 1408206000902 Zn binding site [ion binding]; other site 1408206000903 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1408206000904 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 1408206000905 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1408206000906 RNA/DNA hybrid binding site [nucleotide binding]; other site 1408206000907 active site 1408206000908 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1408206000909 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1408206000910 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1408206000911 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1408206000912 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 1408206000913 dimerization interface [polypeptide binding]; other site 1408206000914 Predicted membrane protein [Function unknown]; Region: COG2855 1408206000915 Membrane transport protein; Region: Mem_trans; pfam03547 1408206000916 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 1408206000917 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1408206000918 active site 1408206000919 motif I; other site 1408206000920 motif II; other site 1408206000921 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 1408206000922 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1408206000923 active site 1408206000924 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1408206000925 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1408206000926 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1408206000927 dihydroorotase; Validated; Region: pyrC; PRK09357 1408206000928 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 1408206000929 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 1408206000930 active site 1408206000931 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1408206000932 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1408206000933 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1408206000934 catalytic site [active] 1408206000935 subunit interface [polypeptide binding]; other site 1408206000936 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1408206000937 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1408206000938 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1408206000939 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1408206000940 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1408206000941 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1408206000942 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 1408206000943 IMP binding site; other site 1408206000944 dimer interface [polypeptide binding]; other site 1408206000945 interdomain contacts; other site 1408206000946 partial ornithine binding site; other site 1408206000947 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 1408206000948 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 1408206000949 heterodimer interface [polypeptide binding]; other site 1408206000950 active site 1408206000951 FMN binding site [chemical binding]; other site 1408206000952 homodimer interface [polypeptide binding]; other site 1408206000953 substrate binding site [chemical binding]; other site 1408206000954 L-aspartate oxidase; Provisional; Region: PRK06175 1408206000955 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 1408206000956 L-aspartate oxidase; Provisional; Region: PRK06175 1408206000957 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1408206000958 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1408206000959 DXD motif; other site 1408206000960 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 1408206000961 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1408206000962 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 1408206000963 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1408206000964 putative metal binding site [ion binding]; other site 1408206000965 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1408206000966 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1408206000967 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 1408206000968 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 1408206000969 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1408206000970 NAD binding site [chemical binding]; other site 1408206000971 substrate binding site [chemical binding]; other site 1408206000972 putative active site [active] 1408206000973 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1408206000974 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1408206000975 Walker A/P-loop; other site 1408206000976 ATP binding site [chemical binding]; other site 1408206000977 Q-loop/lid; other site 1408206000978 ABC transporter signature motif; other site 1408206000979 Walker B; other site 1408206000980 D-loop; other site 1408206000981 H-loop/switch region; other site 1408206000982 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 1408206000983 NMT1/THI5 like; Region: NMT1; pfam09084 1408206000984 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1408206000985 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 1408206000986 dimer interface [polypeptide binding]; other site 1408206000987 conserved gate region; other site 1408206000988 putative PBP binding loops; other site 1408206000989 ABC-ATPase subunit interface; other site 1408206000990 Domain of unknown function DUF77; Region: DUF77; pfam01910 1408206000991 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1408206000992 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 1408206000993 active site 1408206000994 trimer interface [polypeptide binding]; other site 1408206000995 allosteric site; other site 1408206000996 active site lid [active] 1408206000997 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1408206000998 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1408206000999 propionate/acetate kinase; Provisional; Region: PRK12379 1408206001000 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 1408206001001 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1408206001002 metal binding site 2 [ion binding]; metal-binding site 1408206001003 putative DNA binding helix; other site 1408206001004 metal binding site 1 [ion binding]; metal-binding site 1408206001005 dimer interface [polypeptide binding]; other site 1408206001006 structural Zn2+ binding site [ion binding]; other site 1408206001007 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1408206001008 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 1408206001009 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 1408206001010 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 1408206001011 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 1408206001012 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 1408206001013 flavoprotein NrdI; Provisional; Region: PRK02551 1408206001014 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 1408206001015 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1408206001016 active site 1408206001017 motif I; other site 1408206001018 motif II; other site 1408206001019 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 1408206001020 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1408206001021 Domain of unknown function DUF21; Region: DUF21; pfam01595 1408206001022 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 1408206001023 Transporter associated domain; Region: CorC_HlyC; smart01091 1408206001024 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 1408206001025 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1408206001026 active site 1408206001027 catalytic tetrad [active] 1408206001028 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 1408206001029 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 1408206001030 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 1408206001031 putative deacylase active site [active] 1408206001032 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1408206001033 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1408206001034 DNA-binding site [nucleotide binding]; DNA binding site 1408206001035 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1408206001036 putative phosphoketolase; Provisional; Region: PRK05261 1408206001037 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 1408206001038 TPP-binding site; other site 1408206001039 XFP C-terminal domain; Region: XFP_C; pfam09363 1408206001040 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1408206001041 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1408206001042 active site 1408206001043 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1408206001044 Ligand Binding Site [chemical binding]; other site 1408206001045 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1408206001046 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1408206001047 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1408206001048 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1408206001049 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1408206001050 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1408206001051 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1408206001052 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 1408206001053 non-specific DNA binding site [nucleotide binding]; other site 1408206001054 salt bridge; other site 1408206001055 sequence-specific DNA binding site [nucleotide binding]; other site 1408206001056 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1408206001057 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1408206001058 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1408206001059 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 1408206001060 active site 1408206001061 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1408206001062 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1408206001063 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1408206001064 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1408206001065 Sulfatase; Region: Sulfatase; pfam00884 1408206001066 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1408206001067 Coenzyme A binding pocket [chemical binding]; other site 1408206001068 YibE/F-like protein; Region: YibE_F; pfam07907 1408206001069 YibE/F-like protein; Region: YibE_F; pfam07907 1408206001070 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1408206001071 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1408206001072 Cl binding site [ion binding]; other site 1408206001073 oligomer interface [polypeptide binding]; other site 1408206001074 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 1408206001075 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 1408206001076 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1408206001077 catalytic residues [active] 1408206001078 EDD domain protein, DegV family; Region: DegV; TIGR00762 1408206001079 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1408206001080 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 1408206001081 active site 1408206001082 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 1408206001083 dimer interface [polypeptide binding]; other site 1408206001084 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1408206001085 metal binding site [ion binding]; metal-binding site 1408206001086 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1408206001087 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1408206001088 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408206001089 Walker A/P-loop; other site 1408206001090 ATP binding site [chemical binding]; other site 1408206001091 Q-loop/lid; other site 1408206001092 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1408206001093 ABC transporter signature motif; other site 1408206001094 Walker B; other site 1408206001095 D-loop; other site 1408206001096 ABC transporter; Region: ABC_tran_2; pfam12848 1408206001097 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1408206001098 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 1408206001099 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1408206001100 active site 1408206001101 catalytic tetrad [active] 1408206001102 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 1408206001103 TAP-like protein; Region: Abhydrolase_4; pfam08386 1408206001104 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 1408206001105 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; smart00940 1408206001106 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 1408206001107 amino acid transporter; Region: 2A0306; TIGR00909 1408206001108 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1408206001109 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Ap4A hydrolases are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_human_like; cd03428 1408206001110 active site 1408206001111 Ap4A binding cleft/pocket [chemical binding]; other site 1408206001112 P4 phosphate binding site; other site 1408206001113 nudix motif; other site 1408206001114 putative P2/P3 phosphate binding site [ion binding]; other site 1408206001115 Guanylate kinase; Region: Guanylate_kin; pfam00625 1408206001116 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1408206001117 active site 1408206001118 ferric uptake regulator; Provisional; Region: fur; PRK09462 1408206001119 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1408206001120 metal binding site 2 [ion binding]; metal-binding site 1408206001121 putative DNA binding helix; other site 1408206001122 metal binding site 1 [ion binding]; metal-binding site 1408206001123 dimer interface [polypeptide binding]; other site 1408206001124 structural Zn2+ binding site [ion binding]; other site 1408206001125 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1408206001126 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1408206001127 Walker A/P-loop; other site 1408206001128 ATP binding site [chemical binding]; other site 1408206001129 Q-loop/lid; other site 1408206001130 ABC transporter signature motif; other site 1408206001131 Walker B; other site 1408206001132 D-loop; other site 1408206001133 H-loop/switch region; other site 1408206001134 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1408206001135 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 1408206001136 substrate binding pocket [chemical binding]; other site 1408206001137 membrane-bound complex binding site; other site 1408206001138 hinge residues; other site 1408206001139 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1408206001140 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 1408206001141 dimer interface [polypeptide binding]; other site 1408206001142 conserved gate region; other site 1408206001143 putative PBP binding loops; other site 1408206001144 ABC-ATPase subunit interface; other site 1408206001145 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 1408206001146 dimer interface [polypeptide binding]; other site 1408206001147 conserved gate region; other site 1408206001148 putative PBP binding loops; other site 1408206001149 ABC-ATPase subunit interface; other site 1408206001150 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1408206001151 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1408206001152 Helix-Turn-Helix DNA binding domain of BmrR-like transcription regulators; Region: HTH_BmrR-like; cd04768 1408206001153 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1408206001154 DNA binding residues [nucleotide binding] 1408206001155 drug binding residues [chemical binding]; other site 1408206001156 dimer interface [polypeptide binding]; other site 1408206001157 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1408206001158 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1408206001159 HflX GTPase family; Region: HflX; cd01878 1408206001160 G1 box; other site 1408206001161 GTP/Mg2+ binding site [chemical binding]; other site 1408206001162 Switch I region; other site 1408206001163 G2 box; other site 1408206001164 G3 box; other site 1408206001165 Switch II region; other site 1408206001166 G4 box; other site 1408206001167 G5 box; other site 1408206001168 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1408206001169 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1408206001170 peptide binding site [polypeptide binding]; other site 1408206001171 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1408206001172 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 1408206001173 dimer interface [polypeptide binding]; other site 1408206001174 conserved gate region; other site 1408206001175 putative PBP binding loops; other site 1408206001176 ABC-ATPase subunit interface; other site 1408206001177 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1408206001178 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1408206001179 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 1408206001180 dimer interface [polypeptide binding]; other site 1408206001181 conserved gate region; other site 1408206001182 putative PBP binding loops; other site 1408206001183 ABC-ATPase subunit interface; other site 1408206001184 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1408206001185 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1408206001186 Walker A/P-loop; other site 1408206001187 ATP binding site [chemical binding]; other site 1408206001188 Q-loop/lid; other site 1408206001189 ABC transporter signature motif; other site 1408206001190 Walker B; other site 1408206001191 D-loop; other site 1408206001192 H-loop/switch region; other site 1408206001193 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1408206001194 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1408206001195 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1408206001196 Walker A/P-loop; other site 1408206001197 ATP binding site [chemical binding]; other site 1408206001198 Q-loop/lid; other site 1408206001199 ABC transporter signature motif; other site 1408206001200 Walker B; other site 1408206001201 D-loop; other site 1408206001202 H-loop/switch region; other site 1408206001203 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1408206001204 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 1408206001205 catalytic core [active] 1408206001206 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; cl11399 1408206001207 Amino acid permease; Region: AA_permease_2; pfam13520 1408206001208 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 1408206001209 catalytic core [active] 1408206001210 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 1408206001211 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 1408206001212 Part of AAA domain; Region: AAA_19; pfam13245 1408206001213 Family description; Region: UvrD_C_2; pfam13538 1408206001214 acetolactate synthase; Reviewed; Region: PRK08617 1408206001215 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1408206001216 PYR/PP interface [polypeptide binding]; other site 1408206001217 dimer interface [polypeptide binding]; other site 1408206001218 TPP binding site [chemical binding]; other site 1408206001219 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1408206001220 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 1408206001221 TPP-binding site [chemical binding]; other site 1408206001222 dimer interface [polypeptide binding]; other site 1408206001223 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 1408206001224 pantothenate kinase; Provisional; Region: PRK05439 1408206001225 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 1408206001226 ATP-binding site [chemical binding]; other site 1408206001227 CoA-binding site [chemical binding]; other site 1408206001228 Mg2+-binding site [ion binding]; other site 1408206001229 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1408206001230 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 1408206001231 ligand binding site [chemical binding]; other site 1408206001232 flexible hinge region; other site 1408206001233 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 1408206001234 putative switch regulator; other site 1408206001235 non-specific DNA interactions [nucleotide binding]; other site 1408206001236 DNA binding site [nucleotide binding] 1408206001237 sequence specific DNA binding site [nucleotide binding]; other site 1408206001238 putative cAMP binding site [chemical binding]; other site 1408206001239 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 1408206001240 metal-binding site [ion binding] 1408206001241 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1408206001242 dimerization interface [polypeptide binding]; other site 1408206001243 DPS ferroxidase diiron center [ion binding]; other site 1408206001244 ion pore; other site 1408206001245 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 1408206001246 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1408206001247 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1408206001248 GMP synthase; Reviewed; Region: guaA; PRK00074 1408206001249 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1408206001250 AMP/PPi binding site [chemical binding]; other site 1408206001251 candidate oxyanion hole; other site 1408206001252 catalytic triad [active] 1408206001253 potential glutamine specificity residues [chemical binding]; other site 1408206001254 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 1408206001255 ATP Binding subdomain [chemical binding]; other site 1408206001256 Dimerization subdomain; other site 1408206001257 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 1408206001258 non-specific DNA binding site [nucleotide binding]; other site 1408206001259 salt bridge; other site 1408206001260 sequence-specific DNA binding site [nucleotide binding]; other site 1408206001261 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 1408206001262 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1408206001263 putative substrate translocation pore; other site 1408206001264 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 1408206001265 Peptidase family M1; Region: Peptidase_M1; pfam01433 1408206001266 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 1408206001267 Zn binding site [ion binding]; other site 1408206001268 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 1408206001269 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 1408206001270 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 1408206001271 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 1408206001272 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09638 1408206001273 CRISPR/Cas system-associated protein Csn2; Region: Csn2; cd12218 1408206001274 CRISPR type II-A/NMEMI-associated protein Csn2; Region: cas_Csn2; TIGR01866 1408206001275 tetramer interface [polypeptide binding]; other site 1408206001276 putative DNA binding site [nucleotide binding]; other site 1408206001277 CAAX protease self-immunity; Region: Abi; pfam02517 1408206001278 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 1408206001279 oligomerisation interface [polypeptide binding]; other site 1408206001280 mobile loop; other site 1408206001281 roof hairpin; other site 1408206001282 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1408206001283 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 1408206001284 ring oligomerisation interface [polypeptide binding]; other site 1408206001285 ATP/Mg binding site [chemical binding]; other site 1408206001286 stacking interactions; other site 1408206001287 hinge regions; other site 1408206001288 Amino acid permease; Region: AA_permease_2; pfam13520 1408206001289 K+ potassium transporter; Region: K_trans; cl15781 1408206001290 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1408206001291 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 1408206001292 Mg++ binding site [ion binding]; other site 1408206001293 putative catalytic motif [active] 1408206001294 substrate binding site [chemical binding]; other site 1408206001295 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1408206001296 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1408206001297 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1408206001298 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 1408206001299 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 1408206001300 ATP binding site [chemical binding]; other site 1408206001301 putative Mg++ binding site [ion binding]; other site 1408206001302 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 1408206001303 nucleotide binding region [chemical binding]; other site 1408206001304 ATP-binding site [chemical binding]; other site 1408206001305 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1408206001306 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1408206001307 active site 1408206001308 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 1408206001309 30S subunit binding site; other site 1408206001310 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1408206001311 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1408206001312 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 1408206001313 nucleotide binding region [chemical binding]; other site 1408206001314 ATP-binding site [chemical binding]; other site 1408206001315 peptide chain release factor 2; Validated; Region: prfB; PRK00578 1408206001316 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1408206001317 RF-1 domain; Region: RF-1; pfam00472 1408206001318 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1408206001319 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 1408206001320 active site 1408206001321 phosphorylation site [posttranslational modification] 1408206001322 intermolecular recognition site; other site 1408206001323 dimerization interface [polypeptide binding]; other site 1408206001324 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 1408206001325 DNA binding site [nucleotide binding] 1408206001326 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1408206001327 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 1408206001328 dimer interface [polypeptide binding]; other site 1408206001329 phosphorylation site [posttranslational modification] 1408206001330 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 1408206001331 ATP binding site [chemical binding]; other site 1408206001332 Mg2+ binding site [ion binding]; other site 1408206001333 G-X-G motif; other site 1408206001334 PBP superfamily domain; Region: PBP_like_2; cl17296 1408206001335 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1408206001336 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1408206001337 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 1408206001338 dimer interface [polypeptide binding]; other site 1408206001339 conserved gate region; other site 1408206001340 putative PBP binding loops; other site 1408206001341 ABC-ATPase subunit interface; other site 1408206001342 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1408206001343 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 1408206001344 dimer interface [polypeptide binding]; other site 1408206001345 conserved gate region; other site 1408206001346 putative PBP binding loops; other site 1408206001347 ABC-ATPase subunit interface; other site 1408206001348 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 1408206001349 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1408206001350 Walker A/P-loop; other site 1408206001351 ATP binding site [chemical binding]; other site 1408206001352 Q-loop/lid; other site 1408206001353 ABC transporter signature motif; other site 1408206001354 Walker B; other site 1408206001355 D-loop; other site 1408206001356 H-loop/switch region; other site 1408206001357 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 1408206001358 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1408206001359 Walker A/P-loop; other site 1408206001360 ATP binding site [chemical binding]; other site 1408206001361 Q-loop/lid; other site 1408206001362 ABC transporter signature motif; other site 1408206001363 Walker B; other site 1408206001364 D-loop; other site 1408206001365 H-loop/switch region; other site 1408206001366 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1408206001367 PhoU domain; Region: PhoU; pfam01895 1408206001368 PhoU domain; Region: PhoU; pfam01895 1408206001369 PspC domain; Region: PspC; pfam04024 1408206001370 Predicted membrane protein [Function unknown]; Region: COG1950 1408206001371 HPr kinase/phosphorylase; Provisional; Region: PRK05428 1408206001372 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 1408206001373 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 1408206001374 Hpr binding site; other site 1408206001375 active site 1408206001376 homohexamer subunit interaction site [polypeptide binding]; other site 1408206001377 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 1408206001378 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1408206001379 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1408206001380 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1408206001381 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1408206001382 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1408206001383 active site 1408206001384 tetramer interface; other site 1408206001385 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1408206001386 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1408206001387 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1408206001388 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 1408206001389 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 1408206001390 active site 1408206001391 substrate binding site [chemical binding]; other site 1408206001392 metal binding site [ion binding]; metal-binding site 1408206001393 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1408206001394 Zn2+ binding site [ion binding]; other site 1408206001395 Mg2+ binding site [ion binding]; other site 1408206001396 excinuclease ABC subunit B; Provisional; Region: PRK05298 1408206001397 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 1408206001398 ATP binding site [chemical binding]; other site 1408206001399 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 1408206001400 nucleotide binding region [chemical binding]; other site 1408206001401 ATP-binding site [chemical binding]; other site 1408206001402 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1408206001403 UvrB/uvrC motif; Region: UVR; pfam02151 1408206001404 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1408206001405 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1408206001406 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1408206001407 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1408206001408 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1408206001409 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1408206001410 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1408206001411 putative substrate binding pocket [chemical binding]; other site 1408206001412 dimer interface [polypeptide binding]; other site 1408206001413 phosphate binding site [ion binding]; other site 1408206001414 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 1408206001415 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 1408206001416 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 1408206001417 amidase catalytic site [active] 1408206001418 Zn binding residues [ion binding]; other site 1408206001419 substrate binding site [chemical binding]; other site 1408206001420 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 1408206001421 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1408206001422 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1408206001423 oligomer interface [polypeptide binding]; other site 1408206001424 active site residues [active] 1408206001425 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 1408206001426 Int/Topo IB signature motif; other site 1408206001427 PemK-like protein; Region: PemK; pfam02452 1408206001428 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 1408206001429 non-specific DNA binding site [nucleotide binding]; other site 1408206001430 salt bridge; other site 1408206001431 sequence-specific DNA binding site [nucleotide binding]; other site 1408206001432 Prophage antirepressor [Transcription]; Region: COG3617 1408206001433 BRO family, N-terminal domain; Region: Bro-N; smart01040 1408206001434 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 1408206001435 Domain of unknown function (DUF771); Region: DUF771; cl09962 1408206001436 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 1408206001437 zinc binding site [ion binding]; other site 1408206001438 ERF superfamily; Region: ERF; pfam04404 1408206001439 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1408206001440 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 1408206001441 dimer interface [polypeptide binding]; other site 1408206001442 ssDNA binding site [nucleotide binding]; other site 1408206001443 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1408206001444 Conserved phage C-terminus (Phg_2220_C); Region: Phg_2220_C; pfam09524 1408206001445 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 1408206001446 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 1408206001447 Walker A motif; other site 1408206001448 ATP binding site [chemical binding]; other site 1408206001449 Walker B motif; other site 1408206001450 arginine finger; other site 1408206001451 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 1408206001452 YopX protein; Region: YopX; pfam09643 1408206001453 Protein of unknown function (DUF1642); Region: DUF1642; pfam07852 1408206001454 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 1408206001455 DNA binding residues [nucleotide binding] 1408206001456 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 1408206001457 active site 1408206001458 Phage terminase, small subunit; Region: Terminase_4; cl01525 1408206001459 Phage Terminase; Region: Terminase_1; pfam03354 1408206001460 Phage-related protein [Function unknown]; Region: COG4695; cl01923 1408206001461 Phage portal protein; Region: Phage_portal; pfam04860 1408206001462 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 1408206001463 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 1408206001464 Phage capsid family; Region: Phage_capsid; pfam05065 1408206001465 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 1408206001466 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 1408206001467 Head-Tail Connector Proteins gp6 and gp15, and similar proteins; Region: gp6_gp15_like; cl12049 1408206001468 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 1408206001469 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 1408206001470 Protein of unknown function (DUF806); Region: DUF806; pfam05657 1408206001471 Phage major tail protein; Region: Phage_tail; pfam04630 1408206001472 Phage-related tail protein [Function unknown]; Region: COG5283 1408206001473 Peptidase family M23; Region: Peptidase_M23; pfam01551 1408206001474 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1408206001475 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1408206001476 catalytic residue [active] 1408206001477 Phage tail protein; Region: Sipho_tail; cl17486 1408206001478 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 1408206001479 Bacteriophage holin; Region: Phage_holin_1; cl02344 1408206001480 N-acetylmuramoyl-L-alanine amidase; Region: Amidase_2; pfam01510 1408206001481 amidase catalytic site [active] 1408206001482 Zn binding residues [ion binding]; other site 1408206001483 substrate binding site [chemical binding]; other site 1408206001484 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1408206001485 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1408206001486 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1408206001487 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1408206001488 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1408206001489 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1408206001490 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1408206001491 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1408206001492 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1408206001493 Phosphoglycerate kinase; Region: PGK; pfam00162 1408206001494 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 1408206001495 substrate binding site [chemical binding]; other site 1408206001496 hinge regions; other site 1408206001497 ADP binding site [chemical binding]; other site 1408206001498 catalytic site [active] 1408206001499 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 1408206001500 triosephosphate isomerase; Provisional; Region: PRK14567 1408206001501 substrate binding site [chemical binding]; other site 1408206001502 dimer interface [polypeptide binding]; other site 1408206001503 catalytic triad [active] 1408206001504 enolase; Provisional; Region: eno; PRK00077 1408206001505 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 1408206001506 dimer interface [polypeptide binding]; other site 1408206001507 metal binding site [ion binding]; metal-binding site 1408206001508 substrate binding pocket [chemical binding]; other site 1408206001509 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 1408206001510 ribonuclease R; Region: RNase_R; TIGR02063 1408206001511 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1408206001512 RNB domain; Region: RNB; pfam00773 1408206001513 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 1408206001514 RNA binding site [nucleotide binding]; other site 1408206001515 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 1408206001516 SmpB-tmRNA interface; other site 1408206001517 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1408206001518 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1408206001519 Coenzyme A binding pocket [chemical binding]; other site 1408206001520 Tubby C 2; Region: Tub_2; cl02043 1408206001521 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 1408206001522 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1408206001523 active site 1408206001524 motif I; other site 1408206001525 motif II; other site 1408206001526 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1408206001527 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1408206001528 ligand binding site [chemical binding]; other site 1408206001529 active site 1408206001530 UGI interface [polypeptide binding]; other site 1408206001531 catalytic site [active] 1408206001532 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1408206001533 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1408206001534 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1408206001535 Coenzyme A binding pocket [chemical binding]; other site 1408206001536 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1408206001537 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 1408206001538 active site 1408206001539 catalytic site [active] 1408206001540 substrate binding site [chemical binding]; other site 1408206001541 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1408206001542 FAD binding domain; Region: FAD_binding_4; pfam01565 1408206001543 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1408206001544 Uncharacterized conserved protein [Function unknown]; Region: COG1624 1408206001545 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1408206001546 YbbR-like protein; Region: YbbR; pfam07949 1408206001547 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 1408206001548 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 1408206001549 active site 1408206001550 substrate binding site [chemical binding]; other site 1408206001551 metal binding site [ion binding]; metal-binding site 1408206001552 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1408206001553 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 1408206001554 glutaminase active site [active] 1408206001555 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 1408206001556 dimer interface [polypeptide binding]; other site 1408206001557 active site 1408206001558 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 1408206001559 dimer interface [polypeptide binding]; other site 1408206001560 active site 1408206001561 myosin-cross-reactive antigen; Provisional; Region: PRK13977 1408206001562 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1408206001563 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1408206001564 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 1408206001565 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1408206001566 effector binding site; other site 1408206001567 active site 1408206001568 Zn binding site [ion binding]; other site 1408206001569 glycine loop; other site 1408206001570 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 1408206001571 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 1408206001572 FeS/SAM binding site; other site 1408206001573 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 1408206001574 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1408206001575 Walker A/P-loop; other site 1408206001576 ATP binding site [chemical binding]; other site 1408206001577 Q-loop/lid; other site 1408206001578 ABC transporter signature motif; other site 1408206001579 Walker B; other site 1408206001580 D-loop; other site 1408206001581 H-loop/switch region; other site 1408206001582 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1408206001583 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 1408206001584 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1408206001585 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 1408206001586 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1408206001587 catalytic residue [active] 1408206001588 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1408206001589 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1408206001590 trimerization site [polypeptide binding]; other site 1408206001591 active site 1408206001592 FeS assembly protein SufB; Region: sufB; TIGR01980 1408206001593 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1408206001594 Phenolic acid decarboxylase (PAD); Region: PA_decarbox; pfam05870 1408206001595 Predicted transcriptional regulators [Transcription]; Region: COG1695 1408206001596 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1408206001597 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 1408206001598 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 1408206001599 GIY-YIG domain of uncharacterized bacterial protein structurally related to COG3410; Region: GIY-YIG_COG3410; cd10439 1408206001600 GIY-YIG motif/motif A; other site 1408206001601 putative active site [active] 1408206001602 putative metal binding site [ion binding]; other site 1408206001603 AAA ATPase domain; Region: AAA_16; pfam13191 1408206001604 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 1408206001605 Uncharacterized conserved protein [Function unknown]; Region: COG3410 1408206001606 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 1408206001607 active site 1408206001608 phosphorylation site [posttranslational modification] 1408206001609 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 1408206001610 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 1408206001611 active site 1408206001612 P-loop; other site 1408206001613 phosphorylation site [posttranslational modification] 1408206001614 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1408206001615 putative frv operon regulatory protein; Provisional; Region: PRK09863 1408206001616 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 1408206001617 Peptidase family C69; Region: Peptidase_C69; pfam03577 1408206001618 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1408206001619 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 1408206001620 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408206001621 Walker A/P-loop; other site 1408206001622 ATP binding site [chemical binding]; other site 1408206001623 Q-loop/lid; other site 1408206001624 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408206001625 ABC transporter signature motif; other site 1408206001626 Walker B; other site 1408206001627 D-loop; other site 1408206001628 H-loop/switch region; other site 1408206001629 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408206001630 AAA domain; Region: AAA_21; pfam13304 1408206001631 Walker A/P-loop; other site 1408206001632 ATP binding site [chemical binding]; other site 1408206001633 Q-loop/lid; other site 1408206001634 ABC transporter signature motif; other site 1408206001635 Walker B; other site 1408206001636 D-loop; other site 1408206001637 H-loop/switch region; other site 1408206001638 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1408206001639 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 1408206001640 active site 1408206001641 purine riboside binding site [chemical binding]; other site 1408206001642 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1408206001643 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1408206001644 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 1408206001645 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 1408206001646 active site 1408206001647 Rhabdovirus matrix protein; Region: Rhabdo_matrix; pfam03397 1408206001648 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1408206001649 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 1408206001650 catalytic residues [active] 1408206001651 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 1408206001652 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1408206001653 Walker A/P-loop; other site 1408206001654 ATP binding site [chemical binding]; other site 1408206001655 Q-loop/lid; other site 1408206001656 ABC transporter signature motif; other site 1408206001657 Walker B; other site 1408206001658 D-loop; other site 1408206001659 H-loop/switch region; other site 1408206001660 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1408206001661 LicD family; Region: LicD; pfam04991 1408206001662 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 1408206001663 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1408206001664 classical (c) SDRs; Region: SDR_c; cd05233 1408206001665 NAD(P) binding site [chemical binding]; other site 1408206001666 active site 1408206001667 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1408206001668 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1408206001669 DNA binding residues [nucleotide binding] 1408206001670 putative dimer interface [polypeptide binding]; other site 1408206001671 T-box leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408206001672 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1408206001673 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 1408206001674 putative dimer interface [polypeptide binding]; other site 1408206001675 putative anticodon binding site; other site 1408206001676 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 1408206001677 homodimer interface [polypeptide binding]; other site 1408206001678 motif 1; other site 1408206001679 motif 2; other site 1408206001680 active site 1408206001681 motif 3; other site 1408206001682 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1408206001683 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 1408206001684 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 1408206001685 CsbD-like; Region: CsbD; pfam05532 1408206001686 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 1408206001687 substrate binding site [chemical binding]; other site 1408206001688 multimerization interface [polypeptide binding]; other site 1408206001689 ATP binding site [chemical binding]; other site 1408206001690 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 1408206001691 dimer interface [polypeptide binding]; other site 1408206001692 substrate binding site [chemical binding]; other site 1408206001693 ATP binding site [chemical binding]; other site 1408206001694 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 1408206001695 thiamine phosphate binding site [chemical binding]; other site 1408206001696 active site 1408206001697 pyrophosphate binding site [ion binding]; other site 1408206001698 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 1408206001699 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 1408206001700 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 1408206001701 ATP binding site [chemical binding]; other site 1408206001702 putative Mg++ binding site [ion binding]; other site 1408206001703 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 1408206001704 nucleotide binding region [chemical binding]; other site 1408206001705 ATP-binding site [chemical binding]; other site 1408206001706 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1408206001707 HRDC domain; Region: HRDC; pfam00570 1408206001708 Zinc-dependent metalloprotease, MMP_like subfamily. This group contains matrix metalloproteinases (MMPs), serralysins, and the astacin_like family of proteases; Region: ZnMc_MMP_like; cd04268 1408206001709 active site 1408206001710 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1408206001711 Beta-lactamase; Region: Beta-lactamase; pfam00144 1408206001712 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 1408206001713 Chain length determinant protein; Region: Wzz; cl15801 1408206001714 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 1408206001715 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1408206001716 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 1408206001717 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1408206001718 active site 1408206001719 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1408206001720 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1408206001721 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1408206001722 This family is most closely related to the GT1 family of glycosyltransferases. capH in Staphylococcus aureus has been shown to be required for the biosynthesis of the type 1 capsular polysaccharide (CP1); Region: GT1_CapH_like; cd03812 1408206001723 putative ADP-binding pocket [chemical binding]; other site 1408206001724 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1408206001725 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 1408206001726 active site 1408206001727 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 1408206001728 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 1408206001729 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 1408206001730 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1408206001731 UDP-galactopyranose mutase; Region: GLF; pfam03275 1408206001732 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1408206001733 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1408206001734 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1408206001735 VanZ like family; Region: VanZ; cl01971 1408206001736 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1408206001737 Predicted transcriptional regulator [Transcription]; Region: COG2378 1408206001738 HTH domain; Region: HTH_11; pfam08279 1408206001739 WYL domain; Region: WYL; pfam13280 1408206001740 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1408206001741 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_2; cd06419 1408206001742 active site 1408206001743 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1408206001744 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1408206001745 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 1408206001746 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1408206001747 ATP binding site [chemical binding]; other site 1408206001748 putative Mg++ binding site [ion binding]; other site 1408206001749 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 1408206001750 nucleotide binding region [chemical binding]; other site 1408206001751 ATP-binding site [chemical binding]; other site 1408206001752 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 1408206001753 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 1408206001754 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 1408206001755 active site 1408206001756 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 1408206001757 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1408206001758 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1408206001759 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 1408206001760 active site 1408206001761 homodimer interface [polypeptide binding]; other site 1408206001762 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1408206001763 RecX family; Region: RecX; cl00936 1408206001764 hypothetical protein; Provisional; Region: PRK13662 1408206001765 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1408206001766 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1408206001767 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1408206001768 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1408206001769 active site 1408206001770 nucleotide binding site [chemical binding]; other site 1408206001771 HIGH motif; other site 1408206001772 KMSKS motif; other site 1408206001773 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1408206001774 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1408206001775 G1 box; other site 1408206001776 putative GEF interaction site [polypeptide binding]; other site 1408206001777 GTP/Mg2+ binding site [chemical binding]; other site 1408206001778 Switch I region; other site 1408206001779 G2 box; other site 1408206001780 G3 box; other site 1408206001781 Switch II region; other site 1408206001782 G4 box; other site 1408206001783 G5 box; other site 1408206001784 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 1408206001785 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1408206001786 Sulfatase; Region: Sulfatase; pfam00884 1408206001787 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1408206001788 Protein of unknown function (DUF1634); Region: DUF1634; pfam07843 1408206001789 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 1408206001790 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1408206001791 Walker A motif; other site 1408206001792 ATP binding site [chemical binding]; other site 1408206001793 Walker B motif; other site 1408206001794 arginine finger; other site 1408206001795 UvrB/uvrC motif; Region: UVR; pfam02151 1408206001796 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 1408206001797 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1408206001798 Walker A motif; other site 1408206001799 ATP binding site [chemical binding]; other site 1408206001800 Walker B motif; other site 1408206001801 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1408206001802 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 1408206001803 dimerization domain swap beta strand [polypeptide binding]; other site 1408206001804 regulatory protein interface [polypeptide binding]; other site 1408206001805 active site 1408206001806 regulatory phosphorylation site [posttranslational modification]; other site 1408206001807 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1408206001808 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1408206001809 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1408206001810 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1408206001811 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1408206001812 acyl transferase; Provisional; Region: luxD; PRK13604 1408206001813 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1408206001814 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 1408206001815 putative ADP-binding pocket [chemical binding]; other site 1408206001816 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1408206001817 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 1408206001818 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1408206001819 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1408206001820 pyruvate oxidase; Region: pyruv_oxi_spxB; TIGR02720 1408206001821 PYR/PP interface [polypeptide binding]; other site 1408206001822 dimer interface [polypeptide binding]; other site 1408206001823 tetramer interface [polypeptide binding]; other site 1408206001824 TPP binding site [chemical binding]; other site 1408206001825 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1408206001826 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 1408206001827 TPP-binding site [chemical binding]; other site 1408206001828 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1408206001829 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1408206001830 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1408206001831 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1408206001832 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1408206001833 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 1408206001834 putative substrate translocation pore; other site 1408206001835 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1408206001836 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 1408206001837 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 1408206001838 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1408206001839 active site 1408206001840 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1408206001841 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1408206001842 HIGH motif; other site 1408206001843 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1408206001844 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1408206001845 active site 1408206001846 KMSKS motif; other site 1408206001847 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1408206001848 tRNA binding surface [nucleotide binding]; other site 1408206001849 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1408206001850 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1408206001851 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1408206001852 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 1408206001853 RNA binding surface [nucleotide binding]; other site 1408206001854 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1408206001855 active site 1408206001856 uracil binding [chemical binding]; other site 1408206001857 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 1408206001858 putative substrate binding site [chemical binding]; other site 1408206001859 putative ATP binding site [chemical binding]; other site 1408206001860 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1408206001861 Ligand Binding Site [chemical binding]; other site 1408206001862 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 1408206001863 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 1408206001864 Substrate-binding site [chemical binding]; other site 1408206001865 Substrate specificity [chemical binding]; other site 1408206001866 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 1408206001867 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 1408206001868 active site 1408206001869 motif I; other site 1408206001870 motif II; other site 1408206001871 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 1408206001872 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 1408206001873 active site 1408206001874 zinc binding site [ion binding]; other site 1408206001875 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 1408206001876 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 1408206001877 active site 1408206001878 dimer interface [polypeptide binding]; other site 1408206001879 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 1408206001880 Ligand Binding Site [chemical binding]; other site 1408206001881 Molecular Tunnel; other site 1408206001882 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1408206001883 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1408206001884 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1408206001885 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1408206001886 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 1408206001887 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1408206001888 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1408206001889 aspartate racemase; Region: asp_race; TIGR00035 1408206001890 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1408206001891 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 1408206001892 Amino acid permease; Region: AA_permease_2; pfam13520 1408206001893 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 1408206001894 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1408206001895 active site 1408206001896 motif I; other site 1408206001897 motif II; other site 1408206001898 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 1408206001899 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 1408206001900 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1408206001901 active site 1408206001902 catalytic tetrad [active] 1408206001903 T-box leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408206001904 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 1408206001905 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1408206001906 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1408206001907 active site 1408206001908 HIGH motif; other site 1408206001909 KMSK motif region; other site 1408206001910 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1408206001911 tRNA binding surface [nucleotide binding]; other site 1408206001912 anticodon binding site; other site 1408206001913 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1408206001914 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 1408206001915 ligand binding site [chemical binding]; other site 1408206001916 flexible hinge region; other site 1408206001917 Arginine repressor [Transcription]; Region: ArgR; COG1438 1408206001918 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1408206001919 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1408206001920 Transglycosylase; Region: Transgly; pfam00912 1408206001921 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1408206001922 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1408206001923 hypothetical protein; Provisional; Region: PRK13676 1408206001924 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1408206001925 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1408206001926 active site 1408206001927 metal binding site [ion binding]; metal-binding site 1408206001928 DNA binding site [nucleotide binding] 1408206001929 AAA domain; Region: AAA_23; pfam13476 1408206001930 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 1408206001931 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...; Region: YhaM_OBF_like; cd04492 1408206001932 generic binding surface II; other site 1408206001933 generic binding surface I; other site 1408206001934 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1408206001935 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1408206001936 Zn2+ binding site [ion binding]; other site 1408206001937 Mg2+ binding site [ion binding]; other site 1408206001938 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 1408206001939 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1408206001940 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 1408206001941 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 1408206001942 HIT family signature motif; other site 1408206001943 catalytic residue [active] 1408206001944 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1408206001945 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1408206001946 Walker A/P-loop; other site 1408206001947 ATP binding site [chemical binding]; other site 1408206001948 Q-loop/lid; other site 1408206001949 ABC transporter signature motif; other site 1408206001950 Walker B; other site 1408206001951 D-loop; other site 1408206001952 H-loop/switch region; other site 1408206001953 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 1408206001954 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 1408206001955 S-adenosylmethionine binding site [chemical binding]; other site 1408206001956 Predicted small secreted protein [Function unknown]; Region: COG5584 1408206001957 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 1408206001958 putative tRNA-binding site [nucleotide binding]; other site 1408206001959 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1408206001960 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1408206001961 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 1408206001962 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1408206001963 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1408206001964 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1408206001965 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1408206001966 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1408206001967 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1408206001968 DNA polymerase I; Provisional; Region: PRK05755 1408206001969 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1408206001970 active site 1408206001971 metal binding site 1 [ion binding]; metal-binding site 1408206001972 putative 5' ssDNA interaction site; other site 1408206001973 metal binding site 3; metal-binding site 1408206001974 metal binding site 2 [ion binding]; metal-binding site 1408206001975 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1408206001976 putative DNA binding site [nucleotide binding]; other site 1408206001977 putative metal binding site [ion binding]; other site 1408206001978 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 1408206001979 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1408206001980 active site 1408206001981 DNA binding site [nucleotide binding] 1408206001982 catalytic site [active] 1408206001983 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1408206001984 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1408206001985 DNA binding site [nucleotide binding] 1408206001986 catalytic residue [active] 1408206001987 H2TH interface [polypeptide binding]; other site 1408206001988 putative catalytic residues [active] 1408206001989 turnover-facilitating residue; other site 1408206001990 intercalation triad [nucleotide binding]; other site 1408206001991 8OG recognition residue [nucleotide binding]; other site 1408206001992 putative reading head residues; other site 1408206001993 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1408206001994 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1408206001995 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1408206001996 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 1408206001997 CoA-binding site [chemical binding]; other site 1408206001998 ATP-binding [chemical binding]; other site 1408206001999 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1408206002000 ATP cone domain; Region: ATP-cone; pfam03477 1408206002001 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 1408206002002 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 1408206002003 primosomal protein DnaI; Reviewed; Region: PRK08939 1408206002004 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 1408206002005 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 1408206002006 Walker A motif; other site 1408206002007 ATP binding site [chemical binding]; other site 1408206002008 Walker B motif; other site 1408206002009 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1408206002010 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 1408206002011 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1408206002012 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 1408206002013 active site 1408206002014 dimer interface [polypeptide binding]; other site 1408206002015 motif 1; other site 1408206002016 motif 2; other site 1408206002017 motif 3; other site 1408206002018 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 1408206002019 anticodon binding site; other site 1408206002020 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 1408206002021 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 1408206002022 GAF domain; Region: GAF_3; pfam13492 1408206002023 Histidine kinase; Region: His_kinase; pfam06580 1408206002024 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 1408206002025 ATP binding site [chemical binding]; other site 1408206002026 Mg2+ binding site [ion binding]; other site 1408206002027 G-X-G motif; other site 1408206002028 two-component response regulator; Provisional; Region: PRK14084 1408206002029 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 1408206002030 active site 1408206002031 phosphorylation site [posttranslational modification] 1408206002032 intermolecular recognition site; other site 1408206002033 dimerization interface [polypeptide binding]; other site 1408206002034 LytTr DNA-binding domain; Region: LytTR; smart00850 1408206002035 LrgA family; Region: LrgA; cl00608 1408206002036 LrgB-like family; Region: LrgB; cl00596 1408206002037 ribosomal protein L20 leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408206002038 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1408206002039 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1408206002040 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1408206002041 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1408206002042 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1408206002043 23S rRNA binding site [nucleotide binding]; other site 1408206002044 L21 binding site [polypeptide binding]; other site 1408206002045 L13 binding site [polypeptide binding]; other site 1408206002046 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1408206002047 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1408206002048 putative NAD(P) binding site [chemical binding]; other site 1408206002049 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 1408206002050 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 1408206002051 active site 1408206002052 motif I; other site 1408206002053 motif II; other site 1408206002054 GTPase YqeH; Provisional; Region: PRK13796 1408206002055 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 1408206002056 GTP/Mg2+ binding site [chemical binding]; other site 1408206002057 G4 box; other site 1408206002058 G5 box; other site 1408206002059 G1 box; other site 1408206002060 Switch I region; other site 1408206002061 G2 box; other site 1408206002062 G3 box; other site 1408206002063 Switch II region; other site 1408206002064 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 1408206002065 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1408206002066 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1408206002067 active site 1408206002068 (T/H)XGH motif; other site 1408206002069 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1408206002070 Zn2+ binding site [ion binding]; other site 1408206002071 Mg2+ binding site [ion binding]; other site 1408206002072 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 1408206002073 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1408206002074 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 1408206002075 S-adenosylmethionine binding site [chemical binding]; other site 1408206002076 hypothetical protein; Provisional; Region: PRK13670 1408206002077 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 1408206002078 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 1408206002079 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 1408206002080 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1408206002081 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 1408206002082 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1408206002083 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1408206002084 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 1408206002085 active site 1408206002086 phosphorylation site [posttranslational modification] 1408206002087 intermolecular recognition site; other site 1408206002088 dimerization interface [polypeptide binding]; other site 1408206002089 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 1408206002090 DNA binding site [nucleotide binding] 1408206002091 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1408206002092 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 1408206002093 dimerization interface [polypeptide binding]; other site 1408206002094 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 1408206002095 dimer interface [polypeptide binding]; other site 1408206002096 phosphorylation site [posttranslational modification] 1408206002097 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 1408206002098 ATP binding site [chemical binding]; other site 1408206002099 Mg2+ binding site [ion binding]; other site 1408206002100 G-X-G motif; other site 1408206002101 OxaA-like protein precursor; Provisional; Region: PRK02463 1408206002102 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1408206002103 Acylphosphatase; Region: Acylphosphatase; pfam00708 1408206002104 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1408206002105 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1408206002106 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1408206002107 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1408206002108 Predicted transcriptional regulators [Transcription]; Region: COG1733 1408206002109 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 1408206002110 dimerization interface [polypeptide binding]; other site 1408206002111 putative DNA binding site [nucleotide binding]; other site 1408206002112 putative Zn2+ binding site [ion binding]; other site 1408206002113 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1408206002114 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1408206002115 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 1408206002116 dimer interface [polypeptide binding]; other site 1408206002117 motif 1; other site 1408206002118 active site 1408206002119 motif 2; other site 1408206002120 motif 3; other site 1408206002121 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1408206002122 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 1408206002123 putative tRNA-binding site [nucleotide binding]; other site 1408206002124 B3/4 domain; Region: B3_4; pfam03483 1408206002125 tRNA synthetase B5 domain; Region: B5; smart00874 1408206002126 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 1408206002127 dimer interface [polypeptide binding]; other site 1408206002128 motif 1; other site 1408206002129 motif 3; other site 1408206002130 motif 2; other site 1408206002131 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1408206002132 YceG-like family; Region: YceG; pfam02618 1408206002133 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1408206002134 dimerization interface [polypeptide binding]; other site 1408206002135 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1408206002136 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 1408206002137 Sugar specificity; other site 1408206002138 Pyrimidine base specificity; other site 1408206002139 ATP-binding site [chemical binding]; other site 1408206002140 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1408206002141 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1408206002142 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1408206002143 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1408206002144 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1408206002145 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1408206002146 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1408206002147 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1408206002148 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1408206002149 Rhomboid family; Region: Rhomboid; pfam01694 1408206002150 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 1408206002151 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 1408206002152 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1408206002153 nucleotide binding site [chemical binding]; other site 1408206002154 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 1408206002155 active site residue [active] 1408206002156 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 1408206002157 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1408206002158 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 1408206002159 active site 1408206002160 catalytic site [active] 1408206002161 metal binding site [ion binding]; metal-binding site 1408206002162 dimer interface [polypeptide binding]; other site 1408206002163 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1408206002164 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1408206002165 Aluminium resistance protein; Region: Alum_res; pfam06838 1408206002166 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 1408206002167 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 1408206002168 DNA binding residues [nucleotide binding] 1408206002169 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1408206002170 putative dimer interface [polypeptide binding]; other site 1408206002171 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1408206002172 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1408206002173 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1408206002174 dUTPase; Region: dUTPase_2; pfam08761 1408206002175 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 1408206002176 active site 1408206002177 homodimer interface [polypeptide binding]; other site 1408206002178 metal binding site [ion binding]; metal-binding site 1408206002179 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 1408206002180 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1408206002181 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1408206002182 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 1408206002183 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1408206002184 Protein of unknown function (DUF464); Region: DUF464; pfam04327 1408206002185 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1408206002186 elongation factor P; Validated; Region: PRK00529 1408206002187 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1408206002188 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 1408206002189 RNA binding site [nucleotide binding]; other site 1408206002190 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 1408206002191 RNA binding site [nucleotide binding]; other site 1408206002192 Asp23 family; Region: Asp23; pfam03780 1408206002193 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1408206002194 putative RNA binding site [nucleotide binding]; other site 1408206002195 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 1408206002196 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1408206002197 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1408206002198 homodimer interface [polypeptide binding]; other site 1408206002199 NADP binding site [chemical binding]; other site 1408206002200 substrate binding site [chemical binding]; other site 1408206002201 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1408206002202 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 1408206002203 generic binding surface II; other site 1408206002204 generic binding surface I; other site 1408206002205 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1408206002206 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1408206002207 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1408206002208 substrate binding pocket [chemical binding]; other site 1408206002209 chain length determination region; other site 1408206002210 substrate-Mg2+ binding site; other site 1408206002211 catalytic residues [active] 1408206002212 aspartate-rich region 1; other site 1408206002213 active site lid residues [active] 1408206002214 aspartate-rich region 2; other site 1408206002215 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1408206002216 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 1408206002217 RNA binding surface [nucleotide binding]; other site 1408206002218 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1408206002219 Arginine repressor [Transcription]; Region: ArgR; COG1438 1408206002220 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1408206002221 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1408206002222 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1408206002223 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1408206002224 Walker A/P-loop; other site 1408206002225 ATP binding site [chemical binding]; other site 1408206002226 Q-loop/lid; other site 1408206002227 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1408206002228 ABC transporter signature motif; other site 1408206002229 Walker B; other site 1408206002230 D-loop; other site 1408206002231 H-loop/switch region; other site 1408206002232 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1408206002233 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 1408206002234 catalytic site [active] 1408206002235 G-X2-G-X-G-K; other site 1408206002236 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1408206002237 Flavoprotein; Region: Flavoprotein; pfam02441 1408206002238 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1408206002239 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1408206002240 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 1408206002241 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 1408206002242 ATP binding site [chemical binding]; other site 1408206002243 putative Mg++ binding site [ion binding]; other site 1408206002244 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 1408206002245 ATP-binding site [chemical binding]; other site 1408206002246 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1408206002247 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1408206002248 putative active site [active] 1408206002249 substrate binding site [chemical binding]; other site 1408206002250 putative cosubstrate binding site; other site 1408206002251 catalytic site [active] 1408206002252 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1408206002253 substrate binding site [chemical binding]; other site 1408206002254 16S rRNA methyltransferase B; Provisional; Region: PRK14902 1408206002255 NusB family; Region: NusB; pfam01029 1408206002256 putative RNA binding site [nucleotide binding]; other site 1408206002257 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 1408206002258 S-adenosylmethionine binding site [chemical binding]; other site 1408206002259 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 1408206002260 active site 1408206002261 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1408206002262 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1408206002263 active site 1408206002264 ATP binding site [chemical binding]; other site 1408206002265 substrate binding site [chemical binding]; other site 1408206002266 activation loop (A-loop); other site 1408206002267 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 1408206002268 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 1408206002269 GTPase RsgA; Reviewed; Region: PRK00098 1408206002270 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 1408206002271 RNA binding site [nucleotide binding]; other site 1408206002272 homodimer interface [polypeptide binding]; other site 1408206002273 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1408206002274 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1408206002275 GTP/Mg2+ binding site [chemical binding]; other site 1408206002276 G4 box; other site 1408206002277 G5 box; other site 1408206002278 G1 box; other site 1408206002279 Switch I region; other site 1408206002280 G2 box; other site 1408206002281 G3 box; other site 1408206002282 Switch II region; other site 1408206002283 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1408206002284 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 1408206002285 substrate binding site [chemical binding]; other site 1408206002286 hexamer interface [polypeptide binding]; other site 1408206002287 metal binding site [ion binding]; metal-binding site 1408206002288 Thiamine pyrophosphokinase; Region: TPK; cd07995 1408206002289 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 1408206002290 active site 1408206002291 dimerization interface [polypeptide binding]; other site 1408206002292 thiamine binding site [chemical binding]; other site 1408206002293 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1408206002294 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1408206002295 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 1408206002296 DAK2 domain; Region: Dak2; pfam02734 1408206002297 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1408206002298 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1408206002299 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 1408206002300 generic binding surface II; other site 1408206002301 ssDNA binding site; other site 1408206002302 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 1408206002303 ATP binding site [chemical binding]; other site 1408206002304 putative Mg++ binding site [ion binding]; other site 1408206002305 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 1408206002306 nucleotide binding region [chemical binding]; other site 1408206002307 ATP-binding site [chemical binding]; other site 1408206002308 putative phosphate acyltransferase; Provisional; Region: PRK05331 1408206002309 acyl carrier protein; Provisional; Region: acpP; PRK00982 1408206002310 ribonuclease III; Reviewed; Region: rnc; PRK00102 1408206002311 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 1408206002312 dimerization interface [polypeptide binding]; other site 1408206002313 active site 1408206002314 metal binding site [ion binding]; metal-binding site 1408206002315 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 1408206002316 dsRNA binding site [nucleotide binding]; other site 1408206002317 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1408206002318 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1408206002319 Walker A/P-loop; other site 1408206002320 ATP binding site [chemical binding]; other site 1408206002321 Q-loop/lid; other site 1408206002322 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1408206002323 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1408206002324 ABC transporter signature motif; other site 1408206002325 Walker B; other site 1408206002326 D-loop; other site 1408206002327 H-loop/switch region; other site 1408206002328 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1408206002329 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1408206002330 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 1408206002331 P loop; other site 1408206002332 GTP binding site [chemical binding]; other site 1408206002333 putative DNA-binding protein; Validated; Region: PRK00118 1408206002334 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 1408206002335 signal recognition particle protein; Provisional; Region: PRK10867 1408206002336 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1408206002337 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 1408206002338 GTP binding site [chemical binding]; other site 1408206002339 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1408206002340 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1408206002341 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1408206002342 RimM N-terminal domain; Region: RimM; pfam01782 1408206002343 PRC-barrel domain; Region: PRC; pfam05239 1408206002344 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1408206002345 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1408206002346 hypothetical protein; Provisional; Region: PRK00967 1408206002347 DsrE/DsrF-like family; Region: DrsE; cl00672 1408206002348 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 1408206002349 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1408206002350 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 1408206002351 dimer interface [polypeptide binding]; other site 1408206002352 active site 1408206002353 CoA binding pocket [chemical binding]; other site 1408206002354 acyl carrier protein; Provisional; Region: acpP; PRK00982 1408206002355 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1408206002356 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1408206002357 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1408206002358 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1408206002359 NAD(P) binding site [chemical binding]; other site 1408206002360 active site 1408206002361 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 1408206002362 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 1408206002363 dimer interface [polypeptide binding]; other site 1408206002364 active site 1408206002365 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1408206002366 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 1408206002367 carboxyltransferase (CT) interaction site; other site 1408206002368 biotinylation site [posttranslational modification]; other site 1408206002369 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 1408206002370 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1408206002371 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1408206002372 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1408206002373 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1408206002374 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1408206002375 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 1408206002376 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1408206002377 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1408206002378 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06079 1408206002379 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1408206002380 NAD binding site [chemical binding]; other site 1408206002381 homotetramer interface [polypeptide binding]; other site 1408206002382 homodimer interface [polypeptide binding]; other site 1408206002383 substrate binding site [chemical binding]; other site 1408206002384 active site 1408206002385 putative transport protein YifK; Provisional; Region: PRK10746 1408206002386 "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...; Region: init_cond_enzymes; cd00827 1408206002387 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 1408206002388 dimer interface [polypeptide binding]; other site 1408206002389 active site 1408206002390 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1408206002391 LexA repressor; Validated; Region: PRK00215 1408206002392 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 1408206002393 Catalytic site [active] 1408206002394 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 1408206002395 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 1408206002396 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1408206002397 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1408206002398 putative acyl-acceptor binding pocket; other site 1408206002399 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1408206002400 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 1408206002401 S-adenosylmethionine binding site [chemical binding]; other site 1408206002402 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1408206002403 GIY-YIG motif/motif A; other site 1408206002404 putative active site [active] 1408206002405 putative metal binding site [ion binding]; other site 1408206002406 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 1408206002407 D-lactate dehydrogenase; Validated; Region: PRK08605 1408206002408 homodimer interface [polypeptide binding]; other site 1408206002409 ligand binding site [chemical binding]; other site 1408206002410 NAD binding site [chemical binding]; other site 1408206002411 catalytic site [active] 1408206002412 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 1408206002413 rRNA interaction site [nucleotide binding]; other site 1408206002414 S8 interaction site; other site 1408206002415 putative laminin-1 binding site; other site 1408206002416 elongation factor Ts; Provisional; Region: tsf; PRK09377 1408206002417 UBA/TS-N domain; Region: UBA; pfam00627 1408206002418 Elongation factor TS; Region: EF_TS; pfam00889 1408206002419 Elongation factor TS; Region: EF_TS; pfam00889 1408206002420 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 1408206002421 putative nucleotide binding site [chemical binding]; other site 1408206002422 uridine monophosphate binding site [chemical binding]; other site 1408206002423 homohexameric interface [polypeptide binding]; other site 1408206002424 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1408206002425 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 1408206002426 hinge region; other site 1408206002427 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1408206002428 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 1408206002429 catalytic residue [active] 1408206002430 putative FPP diphosphate binding site; other site 1408206002431 putative FPP binding hydrophobic cleft; other site 1408206002432 dimer interface [polypeptide binding]; other site 1408206002433 putative IPP diphosphate binding site; other site 1408206002434 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1408206002435 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1408206002436 RIP metalloprotease RseP; Region: TIGR00054 1408206002437 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 1408206002438 active site 1408206002439 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1408206002440 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 1408206002441 protein binding site [polypeptide binding]; other site 1408206002442 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 1408206002443 putative substrate binding region [chemical binding]; other site 1408206002444 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1408206002445 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 1408206002446 dimer interface [polypeptide binding]; other site 1408206002447 motif 1; other site 1408206002448 active site 1408206002449 motif 2; other site 1408206002450 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 1408206002451 putative deacylase active site [active] 1408206002452 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1408206002453 active site 1408206002454 motif 3; other site 1408206002455 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 1408206002456 anticodon binding site; other site 1408206002457 DNA polymerase III PolC; Validated; Region: polC; PRK00448 1408206002458 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 1408206002459 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 1408206002460 generic binding surface II; other site 1408206002461 generic binding surface I; other site 1408206002462 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1408206002463 active site 1408206002464 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1408206002465 active site 1408206002466 catalytic site [active] 1408206002467 substrate binding site [chemical binding]; other site 1408206002468 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 1408206002469 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1408206002470 Sm and related proteins; Region: Sm_like; cl00259 1408206002471 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1408206002472 putative oligomer interface [polypeptide binding]; other site 1408206002473 putative RNA binding site [nucleotide binding]; other site 1408206002474 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1408206002475 NusA N-terminal domain; Region: NusA_N; pfam08529 1408206002476 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 1408206002477 RNA binding site [nucleotide binding]; other site 1408206002478 homodimer interface [polypeptide binding]; other site 1408206002479 NusA-like KH domain; Region: KH_5; pfam13184 1408206002480 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 1408206002481 G-X-X-G motif; other site 1408206002482 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 1408206002483 putative RNA binding cleft [nucleotide binding]; other site 1408206002484 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 1408206002485 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1408206002486 translation initiation factor IF-2; Region: IF-2; TIGR00487 1408206002487 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1408206002488 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1408206002489 G1 box; other site 1408206002490 putative GEF interaction site [polypeptide binding]; other site 1408206002491 GTP/Mg2+ binding site [chemical binding]; other site 1408206002492 Switch I region; other site 1408206002493 G2 box; other site 1408206002494 G3 box; other site 1408206002495 Switch II region; other site 1408206002496 G4 box; other site 1408206002497 G5 box; other site 1408206002498 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 1408206002499 Translation-initiation factor 2; Region: IF-2; pfam11987 1408206002500 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 1408206002501 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1408206002502 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 1408206002503 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1408206002504 RNA binding site [nucleotide binding]; other site 1408206002505 active site 1408206002506 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1408206002507 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1408206002508 active site 1408206002509 Riboflavin kinase; Region: Flavokinase; smart00904 1408206002510 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1408206002511 GrpE; Region: GrpE; pfam01025 1408206002512 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 1408206002513 dimer interface [polypeptide binding]; other site 1408206002514 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1408206002515 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1408206002516 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1408206002517 nucleotide binding site [chemical binding]; other site 1408206002518 NEF interaction site [polypeptide binding]; other site 1408206002519 SBD interface [polypeptide binding]; other site 1408206002520 chaperone protein DnaJ; Provisional; Region: PRK14276 1408206002521 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 1408206002522 HSP70 interaction site [polypeptide binding]; other site 1408206002523 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1408206002524 substrate binding site [polypeptide binding]; other site 1408206002525 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1408206002526 Zn binding sites [ion binding]; other site 1408206002527 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1408206002528 substrate binding site [polypeptide binding]; other site 1408206002529 dimer interface [polypeptide binding]; other site 1408206002530 Domain of unknown function (DUF378); Region: DUF378; pfam04070 1408206002531 TspO/MBR family; Region: TspO_MBR; pfam03073 1408206002532 QueT transporter; Region: QueT; pfam06177 1408206002533 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 1408206002534 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK06550 1408206002535 classical (c) SDRs; Region: SDR_c; cd05233 1408206002536 NAD(P) binding site [chemical binding]; other site 1408206002537 active site 1408206002538 Domain of unknown function (DUF4373); Region: DUF4373; pfam14297 1408206002539 Predicted membrane protein [Function unknown]; Region: COG2261 1408206002540 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 1408206002541 dimanganese center [ion binding]; other site 1408206002542 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 1408206002543 GTP-binding protein LepA; Provisional; Region: PRK05433 1408206002544 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1408206002545 G1 box; other site 1408206002546 putative GEF interaction site [polypeptide binding]; other site 1408206002547 GTP/Mg2+ binding site [chemical binding]; other site 1408206002548 Switch I region; other site 1408206002549 G2 box; other site 1408206002550 G3 box; other site 1408206002551 Switch II region; other site 1408206002552 G4 box; other site 1408206002553 G5 box; other site 1408206002554 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 1408206002555 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 1408206002556 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1408206002557 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1408206002558 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1408206002559 transmembrane helices; other site 1408206002560 Peptidase family C69; Region: Peptidase_C69; pfam03577 1408206002561 4-oxalocrotonate tautomerase; Provisional; Region: PRK02220 1408206002562 active site 1 [active] 1408206002563 dimer interface [polypeptide binding]; other site 1408206002564 hexamer interface [polypeptide binding]; other site 1408206002565 active site 2 [active] 1408206002566 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 1408206002567 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1408206002568 active site 1408206002569 motif I; other site 1408206002570 motif II; other site 1408206002571 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 1408206002572 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 1408206002573 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 1408206002574 S-adenosylmethionine binding site [chemical binding]; other site 1408206002575 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 1408206002576 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1408206002577 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1408206002578 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1408206002579 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1408206002580 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 1408206002581 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 1408206002582 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1408206002583 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1408206002584 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1408206002585 L-lactate oxidase; Region: L_lactate_ox; TIGR02708 1408206002586 L-Lactate oxidase (LOX) FMN-binding domain. LOX is a member of the family of FMN-containing alpha-hydroxyacid oxidases and catalyzes the oxidation of l-lactate using molecular oxygen to generate pyruvate and H2O2. This family occurs in both prokaryotes...; Region: LOX_like_FMN; cd04737 1408206002587 teramer interface [polypeptide binding]; other site 1408206002588 active site 1408206002589 FMN binding site [chemical binding]; other site 1408206002590 catalytic residues [active] 1408206002591 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 1408206002592 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 1408206002593 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 1408206002594 homotetramer interface [polypeptide binding]; other site 1408206002595 FMN binding site [chemical binding]; other site 1408206002596 homodimer contacts [polypeptide binding]; other site 1408206002597 putative active site [active] 1408206002598 putative substrate binding site [chemical binding]; other site 1408206002599 phosphomevalonate kinase, ERG8-type, Gram-positive branch; Region: Pmev_kin_Gr_pos; TIGR01220 1408206002600 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1408206002601 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 1408206002602 diphosphomevalonate decarboxylase; Region: PLN02407 1408206002603 mevalonate kinase; Region: mevalon_kin; TIGR00549 1408206002604 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1408206002605 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1408206002606 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 1408206002607 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1408206002608 active site 1408206002609 catalytic site [active] 1408206002610 substrate binding site [chemical binding]; other site 1408206002611 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 1408206002612 ATP binding site [chemical binding]; other site 1408206002613 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1408206002614 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 1408206002615 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 1408206002616 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 1408206002617 Transglycosylase; Region: Transgly; pfam00912 1408206002618 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1408206002619 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1408206002620 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 1408206002621 hypothetical protein; Provisional; Region: PRK13660 1408206002622 cell division protein GpsB; Provisional; Region: PRK14127 1408206002623 DivIVA domain; Region: DivI1A_domain; TIGR03544 1408206002624 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1408206002625 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1408206002626 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1408206002627 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1408206002628 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 1408206002629 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 1408206002630 Potassium binding sites [ion binding]; other site 1408206002631 Cesium cation binding sites [ion binding]; other site 1408206002632 lipoprotein signal peptidase; Provisional; Region: PRK14787 1408206002633 lipoprotein signal peptidase; Provisional; Region: PRK14797 1408206002634 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1408206002635 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 1408206002636 RNA binding surface [nucleotide binding]; other site 1408206002637 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1408206002638 active site 1408206002639 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1408206002640 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1408206002641 active site 1408206002642 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1408206002643 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 1408206002644 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1408206002645 catalytic site [active] 1408206002646 subunit interface [polypeptide binding]; other site 1408206002647 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 1408206002648 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1408206002649 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1408206002650 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 1408206002651 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1408206002652 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 1408206002653 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1408206002654 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 1408206002655 MarR family; Region: MarR_2; pfam12802 1408206002656 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1408206002657 EDD domain protein, DegV family; Region: DegV; TIGR00762 1408206002658 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1408206002659 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 1408206002660 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1408206002661 inner membrane transporter YjeM; Provisional; Region: PRK15238 1408206002662 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1408206002663 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1408206002664 SelR domain; Region: SelR; pfam01641 1408206002665 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1408206002666 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 1408206002667 DHH family; Region: DHH; pfam01368 1408206002668 DHHA2 domain; Region: DHHA2; pfam02833 1408206002669 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1408206002670 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1408206002671 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 1408206002672 dimerization interface [polypeptide binding]; other site 1408206002673 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1408206002674 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 1408206002675 CAP-like domain; other site 1408206002676 active site 1408206002677 primary dimer interface [polypeptide binding]; other site 1408206002678 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1408206002679 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1408206002680 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1408206002681 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 1408206002682 ATP binding site [chemical binding]; other site 1408206002683 Mg2+ binding site [ion binding]; other site 1408206002684 G-X-G motif; other site 1408206002685 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 1408206002686 anchoring element; other site 1408206002687 dimer interface [polypeptide binding]; other site 1408206002688 ATP binding site [chemical binding]; other site 1408206002689 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 1408206002690 active site 1408206002691 putative metal-binding site [ion binding]; other site 1408206002692 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1408206002693 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 1408206002694 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 1408206002695 active site 1408206002696 catalytic residues [active] 1408206002697 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1408206002698 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 1408206002699 Walker A motif; other site 1408206002700 ATP binding site [chemical binding]; other site 1408206002701 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1408206002702 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1408206002703 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 1408206002704 active site 1408206002705 HslU subunit interaction site [polypeptide binding]; other site 1408206002706 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 1408206002707 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1408206002708 active site 1408206002709 DNA binding site [nucleotide binding] 1408206002710 Int/Topo IB signature motif; other site 1408206002711 DNA topoisomerase I; Validated; Region: PRK05582 1408206002712 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 1408206002713 active site 1408206002714 interdomain interaction site; other site 1408206002715 putative metal-binding site [ion binding]; other site 1408206002716 nucleotide binding site [chemical binding]; other site 1408206002717 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 1408206002718 domain I; other site 1408206002719 DNA binding groove [nucleotide binding] 1408206002720 phosphate binding site [ion binding]; other site 1408206002721 domain II; other site 1408206002722 domain III; other site 1408206002723 nucleotide binding site [chemical binding]; other site 1408206002724 catalytic site [active] 1408206002725 domain IV; other site 1408206002726 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1408206002727 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1408206002728 beta-phosphoglucomutase; Region: bPGM; TIGR01990 1408206002729 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 1408206002730 motif II; other site 1408206002731 maltose phosphorylase; Provisional; Region: PRK13807 1408206002732 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 1408206002733 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 1408206002734 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 1408206002735 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 1408206002736 putative substrate translocation pore; other site 1408206002737 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1408206002738 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1408206002739 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1408206002740 DNA binding site [nucleotide binding] 1408206002741 domain linker motif; other site 1408206002742 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1408206002743 DNA protecting protein DprA; Region: dprA; TIGR00732 1408206002744 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1408206002745 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1408206002746 RNA/DNA hybrid binding site [nucleotide binding]; other site 1408206002747 active site 1408206002748 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 1408206002749 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 1408206002750 GTP/Mg2+ binding site [chemical binding]; other site 1408206002751 G4 box; other site 1408206002752 G5 box; other site 1408206002753 G1 box; other site 1408206002754 Switch I region; other site 1408206002755 G2 box; other site 1408206002756 G3 box; other site 1408206002757 Switch II region; other site 1408206002758 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 1408206002759 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1408206002760 Walker A motif; other site 1408206002761 ATP binding site [chemical binding]; other site 1408206002762 Walker B motif; other site 1408206002763 arginine finger; other site 1408206002764 MoxR-like ATPases [General function prediction only]; Region: COG0714 1408206002765 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 1408206002766 Walker A motif; other site 1408206002767 ATP binding site [chemical binding]; other site 1408206002768 Walker B motif; other site 1408206002769 arginine finger; other site 1408206002770 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1408206002771 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 1408206002772 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 1408206002773 WxL domain surface cell wall-binding; Region: WxL; pfam13731 1408206002774 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 1408206002775 Haemolysin XhlA; Region: XhlA; pfam10779 1408206002776 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 1408206002777 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 1408206002778 active site 1408206002779 Bacterial SH3 domain; Region: SH3_5; pfam08460 1408206002780 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1408206002781 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1408206002782 gp58-like protein; Region: Gp58; pfam07902 1408206002783 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 1408206002784 Phage tail protein; Region: Sipho_tail; cl17486 1408206002785 Phage-related tail protein [Function unknown]; Region: COG5283 1408206002786 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1408206002787 Peptidase family M23; Region: Peptidase_M23; pfam01551 1408206002788 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1408206002789 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1408206002790 catalytic residue [active] 1408206002791 Protein of unknown function (DUF1268); Region: DUF1268; pfam06896 1408206002792 Phage major tail protein; Region: Phage_tail; pfam04630 1408206002793 Protein of unknown function (DUF806); Region: DUF806; pfam05657 1408206002794 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 1408206002795 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 1408206002796 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 1408206002797 oligomerization interface [polypeptide binding]; other site 1408206002798 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 1408206002799 Phage capsid family; Region: Phage_capsid; pfam05065 1408206002800 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 1408206002801 oligomer interface [polypeptide binding]; other site 1408206002802 active site residues [active] 1408206002803 Phage-related protein [Function unknown]; Region: COG4695 1408206002804 Phage portal protein; Region: Phage_portal; pfam04860 1408206002805 Protein of unknown function (DUF1056); Region: DUF1056; pfam06341 1408206002806 Phage terminase, small subunit; Region: Terminase_4; cl01525 1408206002807 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1408206002808 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 1408206002809 active site 1408206002810 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 1408206002811 non-specific DNA binding site [nucleotide binding]; other site 1408206002812 salt bridge; other site 1408206002813 sequence-specific DNA binding site [nucleotide binding]; other site 1408206002814 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 1408206002815 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u3; cd11540 1408206002816 putative metal binding site [ion binding]; other site 1408206002817 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 1408206002818 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1408206002819 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 1408206002820 dimer interface [polypeptide binding]; other site 1408206002821 ssDNA binding site [nucleotide binding]; other site 1408206002822 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1408206002823 ERF superfamily; Region: ERF; pfam04404 1408206002824 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 1408206002825 non-specific DNA binding site [nucleotide binding]; other site 1408206002826 salt bridge; other site 1408206002827 sequence-specific DNA binding site [nucleotide binding]; other site 1408206002828 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 1408206002829 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 1408206002830 Prophage antirepressor [Transcription]; Region: COG3617 1408206002831 BRO family, N-terminal domain; Region: Bro-N; smart01040 1408206002832 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 1408206002833 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1408206002834 non-specific DNA binding site [nucleotide binding]; other site 1408206002835 salt bridge; other site 1408206002836 sequence-specific DNA binding site [nucleotide binding]; other site 1408206002837 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1408206002838 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 1408206002839 non-specific DNA binding site [nucleotide binding]; other site 1408206002840 salt bridge; other site 1408206002841 sequence-specific DNA binding site [nucleotide binding]; other site 1408206002842 Domain of unknown function (DUF955); Region: DUF955; cl01076 1408206002843 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 1408206002844 Predicted membrane protein (DUF2335); Region: DUF2335; pfam10097 1408206002845 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1408206002846 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 1408206002847 Int/Topo IB signature motif; other site 1408206002848 Mga helix-turn-helix domain; Region: Mga; pfam05043 1408206002849 conserved hypothetical protein; Region: TIGR02328 1408206002850 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 1408206002851 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 1408206002852 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1408206002853 putative substrate translocation pore; other site 1408206002854 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 1408206002855 substrate interface [chemical binding]; other site 1408206002856 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1408206002857 FtsX-like permease family; Region: FtsX; pfam02687 1408206002858 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 1408206002859 dimerization interface [polypeptide binding]; other site 1408206002860 putative DNA binding site [nucleotide binding]; other site 1408206002861 putative Zn2+ binding site [ion binding]; other site 1408206002862 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 1408206002863 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 1408206002864 active site 1408206002865 dimer interface [polypeptide binding]; other site 1408206002866 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 1408206002867 Ligand Binding Site [chemical binding]; other site 1408206002868 Molecular Tunnel; other site 1408206002869 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1408206002870 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 1408206002871 non-specific DNA binding site [nucleotide binding]; other site 1408206002872 salt bridge; other site 1408206002873 sequence-specific DNA binding site [nucleotide binding]; other site 1408206002874 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1408206002875 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1408206002876 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1408206002877 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 1408206002878 dimerization interface [polypeptide binding]; other site 1408206002879 MarR family; Region: MarR_2; pfam12802 1408206002880 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1408206002881 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 1408206002882 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1408206002883 legume lectins; Region: lectin_L-type; cl14058 1408206002884 homotetramer interaction site [polypeptide binding]; other site 1408206002885 homodimer interaction site [polypeptide binding]; other site 1408206002886 carbohydrate binding site [chemical binding]; other site 1408206002887 metal binding site [ion binding]; metal-binding site 1408206002888 MucBP domain; Region: MucBP; pfam06458 1408206002889 MucBP domain; Region: MucBP; pfam06458 1408206002890 MucBP domain; Region: MucBP; pfam06458 1408206002891 MucBP domain; Region: MucBP; pfam06458 1408206002892 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 1408206002893 non-specific DNA binding site [nucleotide binding]; other site 1408206002894 salt bridge; other site 1408206002895 sequence-specific DNA binding site [nucleotide binding]; other site 1408206002896 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1408206002897 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 1408206002898 active site 1408206002899 multimer interface [polypeptide binding]; other site 1408206002900 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1408206002901 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1408206002902 Coenzyme A binding pocket [chemical binding]; other site 1408206002903 amino acid transporter; Region: 2A0306; TIGR00909 1408206002904 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 1408206002905 ArsC family; Region: ArsC; pfam03960 1408206002906 putative ArsC-like catalytic residues; other site 1408206002907 putative TRX-like catalytic residues [active] 1408206002908 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 1408206002909 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1408206002910 C-terminal peptidase (prc); Region: prc; TIGR00225 1408206002911 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 1408206002912 protein binding site [polypeptide binding]; other site 1408206002913 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1408206002914 Catalytic dyad [active] 1408206002915 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1408206002916 hypothetical protein; Provisional; Region: PRK13672 1408206002917 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; pfam09911 1408206002918 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 1408206002919 active site 1408206002920 catalytic triad [active] 1408206002921 oxyanion hole [active] 1408206002922 EDD domain protein, DegV family; Region: DegV; TIGR00762 1408206002923 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1408206002924 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1408206002925 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1408206002926 Walker A/P-loop; other site 1408206002927 ATP binding site [chemical binding]; other site 1408206002928 Q-loop/lid; other site 1408206002929 ABC transporter signature motif; other site 1408206002930 Walker B; other site 1408206002931 D-loop; other site 1408206002932 H-loop/switch region; other site 1408206002933 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1408206002934 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 1408206002935 substrate binding pocket [chemical binding]; other site 1408206002936 membrane-bound complex binding site; other site 1408206002937 hinge residues; other site 1408206002938 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1408206002939 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 1408206002940 dimer interface [polypeptide binding]; other site 1408206002941 conserved gate region; other site 1408206002942 putative PBP binding loops; other site 1408206002943 ABC-ATPase subunit interface; other site 1408206002944 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1408206002945 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 1408206002946 folate binding site [chemical binding]; other site 1408206002947 NADP+ binding site [chemical binding]; other site 1408206002948 thymidylate synthase; Region: thym_sym; TIGR03284 1408206002949 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 1408206002950 dimerization interface [polypeptide binding]; other site 1408206002951 active site 1408206002952 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1408206002953 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1408206002954 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1408206002955 ABC transporter; Region: ABC_tran_2; pfam12848 1408206002956 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1408206002957 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 1408206002958 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1408206002959 active site 1408206002960 NTP binding site [chemical binding]; other site 1408206002961 metal binding triad [ion binding]; metal-binding site 1408206002962 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1408206002963 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 1408206002964 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1408206002965 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1408206002966 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1408206002967 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1408206002968 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 1408206002969 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 1408206002970 binding surface 1408206002971 TPR motif; other site 1408206002972 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 1408206002973 TPR motif; other site 1408206002974 binding surface 1408206002975 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 1408206002976 binding surface 1408206002977 TPR motif; other site 1408206002978 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 1408206002979 binding surface 1408206002980 TPR motif; other site 1408206002981 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 1408206002982 IHF dimer interface [polypeptide binding]; other site 1408206002983 IHF - DNA interface [nucleotide binding]; other site 1408206002984 GTP-binding protein Der; Reviewed; Region: PRK00093 1408206002985 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1408206002986 G1 box; other site 1408206002987 GTP/Mg2+ binding site [chemical binding]; other site 1408206002988 Switch I region; other site 1408206002989 G2 box; other site 1408206002990 Switch II region; other site 1408206002991 G3 box; other site 1408206002992 G4 box; other site 1408206002993 G5 box; other site 1408206002994 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1408206002995 G1 box; other site 1408206002996 GTP/Mg2+ binding site [chemical binding]; other site 1408206002997 Switch I region; other site 1408206002998 G2 box; other site 1408206002999 G3 box; other site 1408206003000 Switch II region; other site 1408206003001 G4 box; other site 1408206003002 G5 box; other site 1408206003003 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 1408206003004 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 1408206003005 RNA binding site [nucleotide binding]; other site 1408206003006 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 1408206003007 RNA binding site [nucleotide binding]; other site 1408206003008 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 1408206003009 RNA binding site [nucleotide binding]; other site 1408206003010 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...; Region: S1_RPS1_repeat_hs4; cd05692 1408206003011 RNA binding site [nucleotide binding]; other site 1408206003012 cytidylate kinase; Provisional; Region: cmk; PRK00023 1408206003013 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 1408206003014 CMP-binding site; other site 1408206003015 The sites determining sugar specificity; other site 1408206003016 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1408206003017 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1408206003018 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 1408206003019 ATP binding site [chemical binding]; other site 1408206003020 putative Mg++ binding site [ion binding]; other site 1408206003021 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 1408206003022 nucleotide binding region [chemical binding]; other site 1408206003023 ATP-binding site [chemical binding]; other site 1408206003024 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 1408206003025 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1408206003026 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 1408206003027 RNA binding surface [nucleotide binding]; other site 1408206003028 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 1408206003029 active site 1408206003030 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1408206003031 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 1408206003032 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 1408206003033 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1408206003034 active site 1408206003035 Int/Topo IB signature motif; other site 1408206003036 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1408206003037 S1 domain; Region: S1_2; pfam13509 1408206003038 Protein of unknown function (DUF441); Region: DUF441; pfam04284 1408206003039 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1408206003040 pyruvate kinase; Provisional; Region: PRK06354 1408206003041 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 1408206003042 domain interfaces; other site 1408206003043 active site 1408206003044 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 1408206003045 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 1408206003046 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1408206003047 active site 1408206003048 ADP/pyrophosphate binding site [chemical binding]; other site 1408206003049 dimerization interface [polypeptide binding]; other site 1408206003050 allosteric effector site; other site 1408206003051 fructose-1,6-bisphosphate binding site; other site 1408206003052 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 1408206003053 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 1408206003054 active site 1408206003055 PHP Thumb interface [polypeptide binding]; other site 1408206003056 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 1408206003057 generic binding surface II; other site 1408206003058 generic binding surface I; other site 1408206003059 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 1408206003060 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1408206003061 Clp amino terminal domain; Region: Clp_N; pfam02861 1408206003062 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 1408206003063 Walker A motif; other site 1408206003064 ATP binding site [chemical binding]; other site 1408206003065 Walker B motif; other site 1408206003066 arginine finger; other site 1408206003067 Protein of unknown function (DUF2810); Region: DUF2810; cl08159 1408206003068 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 1408206003069 Walker A motif; other site 1408206003070 ATP binding site [chemical binding]; other site 1408206003071 Walker B motif; other site 1408206003072 arginine finger; other site 1408206003073 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1408206003074 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1408206003075 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1408206003076 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 1408206003077 Family of unknown function (DUF633); Region: DUF633; pfam04816 1408206003078 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 1408206003079 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1408206003080 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1408206003081 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1408206003082 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 1408206003083 DNA binding residues [nucleotide binding] 1408206003084 DNA primase; Validated; Region: dnaG; PRK05667 1408206003085 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1408206003086 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1408206003087 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 1408206003088 active site 1408206003089 metal binding site [ion binding]; metal-binding site 1408206003090 interdomain interaction site; other site 1408206003091 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1408206003092 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1408206003093 DALR anticodon binding domain; Region: DALR_1; pfam05746 1408206003094 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 1408206003095 dimer interface [polypeptide binding]; other site 1408206003096 motif 1; other site 1408206003097 active site 1408206003098 motif 2; other site 1408206003099 motif 3; other site 1408206003100 DNA repair protein RecO; Region: reco; TIGR00613 1408206003101 Recombination protein O N terminal; Region: RecO_N; pfam11967 1408206003102 Recombination protein O C terminal; Region: RecO_C; pfam02565 1408206003103 GTPase Era; Reviewed; Region: era; PRK00089 1408206003104 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1408206003105 G1 box; other site 1408206003106 GTP/Mg2+ binding site [chemical binding]; other site 1408206003107 Switch I region; other site 1408206003108 G2 box; other site 1408206003109 Switch II region; other site 1408206003110 G3 box; other site 1408206003111 G4 box; other site 1408206003112 G5 box; other site 1408206003113 KH domain; Region: KH_2; pfam07650 1408206003114 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 1408206003115 metal-binding heat shock protein; Provisional; Region: PRK00016 1408206003116 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1408206003117 PhoH-like protein; Region: PhoH; pfam02562 1408206003118 Yqey-like protein; Region: YqeY; pfam09424 1408206003119 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1408206003120 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 1408206003121 endonuclease IV; Provisional; Region: PRK01060 1408206003122 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 1408206003123 AP (apurinic/apyrimidinic) site pocket; other site 1408206003124 DNA interaction; other site 1408206003125 Metal-binding active site; metal-binding site 1408206003126 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 1408206003127 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 1408206003128 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 1408206003129 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1408206003130 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1408206003131 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1408206003132 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1408206003133 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1408206003134 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 1408206003135 dimer interface [polypeptide binding]; other site 1408206003136 anticodon binding site; other site 1408206003137 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 1408206003138 homodimer interface [polypeptide binding]; other site 1408206003139 motif 1; other site 1408206003140 active site 1408206003141 motif 2; other site 1408206003142 GAD domain; Region: GAD; pfam02938 1408206003143 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1408206003144 active site 1408206003145 motif 3; other site 1408206003146 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1408206003147 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 1408206003148 dimer interface [polypeptide binding]; other site 1408206003149 motif 1; other site 1408206003150 active site 1408206003151 motif 2; other site 1408206003152 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 1408206003153 anticodon binding site; other site 1408206003154 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1408206003155 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1408206003156 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 1408206003157 active site 1408206003158 metal binding site [ion binding]; metal-binding site 1408206003159 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1408206003160 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 1408206003161 motif II; other site 1408206003162 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 1408206003163 putative active site [active] 1408206003164 dimerization interface [polypeptide binding]; other site 1408206003165 putative tRNAtyr binding site [nucleotide binding]; other site 1408206003166 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1408206003167 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1408206003168 Zn2+ binding site [ion binding]; other site 1408206003169 Mg2+ binding site [ion binding]; other site 1408206003170 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1408206003171 synthetase active site [active] 1408206003172 NTP binding site [chemical binding]; other site 1408206003173 metal binding site [ion binding]; metal-binding site 1408206003174 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 1408206003175 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1408206003176 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1408206003177 RNA methyltransferase, RsmE family; Region: TIGR00046 1408206003178 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 1408206003179 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1408206003180 uracil transporter; Provisional; Region: PRK10720 1408206003181 EamA-like transporter family; Region: EamA; pfam00892 1408206003182 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1408206003183 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 1408206003184 dimer interface [polypeptide binding]; other site 1408206003185 FMN binding site [chemical binding]; other site 1408206003186 NADPH bind site [chemical binding]; other site 1408206003187 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1408206003188 active site 1408206003189 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1408206003190 DHH family; Region: DHH; pfam01368 1408206003191 DHHA1 domain; Region: DHHA1; pfam02272 1408206003192 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; pfam10141 1408206003193 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1408206003194 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1408206003195 NAD(P) binding site [chemical binding]; other site 1408206003196 active site 1408206003197 ribonuclease Z; Region: RNase_Z; TIGR02651 1408206003198 GTPase CgtA; Reviewed; Region: obgE; PRK12297 1408206003199 GTP1/OBG; Region: GTP1_OBG; pfam01018 1408206003200 Obg GTPase; Region: Obg; cd01898 1408206003201 G1 box; other site 1408206003202 GTP/Mg2+ binding site [chemical binding]; other site 1408206003203 Switch I region; other site 1408206003204 G2 box; other site 1408206003205 G3 box; other site 1408206003206 Switch II region; other site 1408206003207 G4 box; other site 1408206003208 G5 box; other site 1408206003209 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 1408206003210 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1408206003211 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1408206003212 GIY-YIG motif/motif A; other site 1408206003213 active site 1408206003214 catalytic site [active] 1408206003215 putative DNA binding site [nucleotide binding]; other site 1408206003216 metal binding site [ion binding]; metal-binding site 1408206003217 UvrB/uvrC motif; Region: UVR; pfam02151 1408206003218 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1408206003219 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1408206003220 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1408206003221 Walker A/P-loop; other site 1408206003222 ATP binding site [chemical binding]; other site 1408206003223 Q-loop/lid; other site 1408206003224 ABC transporter signature motif; other site 1408206003225 Walker B; other site 1408206003226 D-loop; other site 1408206003227 H-loop/switch region; other site 1408206003228 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 1408206003229 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1408206003230 substrate binding pocket [chemical binding]; other site 1408206003231 membrane-bound complex binding site; other site 1408206003232 hinge residues; other site 1408206003233 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1408206003234 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 1408206003235 dimer interface [polypeptide binding]; other site 1408206003236 conserved gate region; other site 1408206003237 putative PBP binding loops; other site 1408206003238 ABC-ATPase subunit interface; other site 1408206003239 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u4; cd11541 1408206003240 putative metal binding site [ion binding]; other site 1408206003241 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1408206003242 G1 box; other site 1408206003243 GTP/Mg2+ binding site [chemical binding]; other site 1408206003244 Switch I region; other site 1408206003245 G2 box; other site 1408206003246 G3 box; other site 1408206003247 Switch II region; other site 1408206003248 G4 box; other site 1408206003249 G5 box; other site 1408206003250 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1408206003251 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1408206003252 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 1408206003253 Walker A motif; other site 1408206003254 ATP binding site [chemical binding]; other site 1408206003255 Walker B motif; other site 1408206003256 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1408206003257 trigger factor; Provisional; Region: tig; PRK01490 1408206003258 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1408206003259 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1408206003260 elongation factor Tu; Reviewed; Region: PRK00049 1408206003261 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1408206003262 G1 box; other site 1408206003263 GEF interaction site [polypeptide binding]; other site 1408206003264 GTP/Mg2+ binding site [chemical binding]; other site 1408206003265 Switch I region; other site 1408206003266 G2 box; other site 1408206003267 G3 box; other site 1408206003268 Switch II region; other site 1408206003269 G4 box; other site 1408206003270 G5 box; other site 1408206003271 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 1408206003272 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 1408206003273 Antibiotic Binding Site [chemical binding]; other site 1408206003274 Ebola nucleoprotein; Region: Ebola_NP; pfam05505 1408206003275 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1408206003276 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1408206003277 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1408206003278 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 1408206003279 16S/18S rRNA binding site [nucleotide binding]; other site 1408206003280 S13e-L30e interaction site [polypeptide binding]; other site 1408206003281 25S rRNA binding site [nucleotide binding]; other site 1408206003282 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1408206003283 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1408206003284 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1408206003285 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1408206003286 Competence protein; Region: Competence; pfam03772 1408206003287 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1408206003288 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1408206003289 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 1408206003290 catalytic motif [active] 1408206003291 Zn binding site [ion binding]; other site 1408206003292 SLBB domain; Region: SLBB; pfam10531 1408206003293 comEA protein; Region: comE; TIGR01259 1408206003294 Helix-hairpin-helix motif; Region: HHH; pfam00633 1408206003295 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1408206003296 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1408206003297 active site 1408206003298 (T/H)XGH motif; other site 1408206003299 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 1408206003300 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 1408206003301 S-adenosylmethionine binding site [chemical binding]; other site 1408206003302 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; pfam09902 1408206003303 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1408206003304 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1408206003305 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1408206003306 G1 box; other site 1408206003307 putative GEF interaction site [polypeptide binding]; other site 1408206003308 GTP/Mg2+ binding site [chemical binding]; other site 1408206003309 Switch I region; other site 1408206003310 G2 box; other site 1408206003311 G3 box; other site 1408206003312 Switch II region; other site 1408206003313 G4 box; other site 1408206003314 G5 box; other site 1408206003315 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 1408206003316 hypothetical protein; Validated; Region: PRK07080 1408206003317 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 1408206003318 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 1408206003319 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1408206003320 active site 1408206003321 Uncharacterized protein family (UPF0223); Region: UPF0223; pfam05256 1408206003322 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 1408206003323 active site 1408206003324 catalytic residues [active] 1408206003325 metal binding site [ion binding]; metal-binding site 1408206003326 Protein of unknown function (DUF1447); Region: DUF1447; pfam07288 1408206003327 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1408206003328 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1408206003329 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1408206003330 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1408206003331 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1408206003332 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1408206003333 NlpC/P60 family; Region: NLPC_P60; pfam00877 1408206003334 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1408206003335 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 1408206003336 active site 1408206003337 phosphorylation site [posttranslational modification] 1408206003338 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 1408206003339 active site 1408206003340 P-loop; other site 1408206003341 phosphorylation site [posttranslational modification] 1408206003342 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1408206003343 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1408206003344 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1408206003345 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 1408206003346 putative substrate binding site [chemical binding]; other site 1408206003347 putative ATP binding site [chemical binding]; other site 1408206003348 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1408206003349 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1408206003350 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1408206003351 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1408206003352 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1408206003353 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 1408206003354 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1408206003355 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1408206003356 active site 1408206003357 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 1408206003358 AAA domain; Region: AAA_30; pfam13604 1408206003359 Family description; Region: UvrD_C_2; pfam13538 1408206003360 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1408206003361 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 1408206003362 binding surface 1408206003363 TPR motif; other site 1408206003364 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1408206003365 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 1408206003366 catalytic core [active] 1408206003367 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1408206003368 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 1408206003369 Putative amino acid metabolism; Region: DUF1831; pfam08866 1408206003370 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1408206003371 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1408206003372 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1408206003373 catalytic residue [active] 1408206003374 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1408206003375 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1408206003376 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 1408206003377 dimer interface [polypeptide binding]; other site 1408206003378 ADP-ribose binding site [chemical binding]; other site 1408206003379 active site 1408206003380 nudix motif; other site 1408206003381 metal binding site [ion binding]; metal-binding site 1408206003382 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1408206003383 DNA-binding site [nucleotide binding]; DNA binding site 1408206003384 RNA-binding motif; other site 1408206003385 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1408206003386 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1408206003387 active site 1408206003388 HIGH motif; other site 1408206003389 nucleotide binding site [chemical binding]; other site 1408206003390 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1408206003391 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1408206003392 active site 1408206003393 KMSKS motif; other site 1408206003394 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1408206003395 tRNA binding surface [nucleotide binding]; other site 1408206003396 anticodon binding site; other site 1408206003397 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1408206003398 T-box leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408206003399 DivIVA protein; Region: DivIVA; pfam05103 1408206003400 DivIVA domain; Region: DivI1A_domain; TIGR03544 1408206003401 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 1408206003402 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 1408206003403 RNA binding surface [nucleotide binding]; other site 1408206003404 YGGT family; Region: YGGT; pfam02325 1408206003405 cell division protein FtsZ; Validated; Region: PRK09330 1408206003406 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 1408206003407 nucleotide binding site [chemical binding]; other site 1408206003408 SulA interaction site; other site 1408206003409 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1408206003410 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1408206003411 nucleotide binding site [chemical binding]; other site 1408206003412 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 1408206003413 Cell division protein FtsA; Region: FtsA; pfam14450 1408206003414 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1408206003415 Cell division protein FtsQ; Region: FtsQ; pfam03799 1408206003416 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1408206003417 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 1408206003418 active site 1408206003419 homodimer interface [polypeptide binding]; other site 1408206003420 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 1408206003421 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1408206003422 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1408206003423 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1408206003424 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 1408206003425 Mg++ binding site [ion binding]; other site 1408206003426 putative catalytic motif [active] 1408206003427 putative substrate binding site [chemical binding]; other site 1408206003428 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1408206003429 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1408206003430 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1408206003431 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 1408206003432 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 1408206003433 Cell division protein FtsL; Region: FtsL; cl11433 1408206003434 MraW methylase family; Region: Methyltransf_5; pfam01795 1408206003435 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1408206003436 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 1408206003437 MraZ protein; Region: MraZ; pfam02381 1408206003438 MraZ protein; Region: MraZ; pfam02381 1408206003439 Protein of unknown function (DUF4044); Region: DUF4044; pfam13253 1408206003440 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1408206003441 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1408206003442 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1408206003443 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1408206003444 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1408206003445 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1408206003446 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1408206003447 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 1408206003448 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 1408206003449 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 1408206003450 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1408206003451 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1408206003452 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 1408206003453 Divalent cation transporter; Region: MgtE; pfam01769 1408206003454 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1408206003455 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1408206003456 active site 1408206003457 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 1408206003458 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1408206003459 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1408206003460 synthetase active site [active] 1408206003461 NTP binding site [chemical binding]; other site 1408206003462 metal binding site [ion binding]; metal-binding site 1408206003463 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 1408206003464 catalytic residues [active] 1408206003465 Competence protein CoiA-like family; Region: CoiA; cl11541 1408206003466 adaptor protein; Provisional; Region: PRK02315 1408206003467 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 1408206003468 ArsC family; Region: ArsC; pfam03960 1408206003469 putative catalytic residues [active] 1408206003470 thiol/disulfide switch; other site 1408206003471 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 1408206003472 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 1408206003473 RNA binding site [nucleotide binding]; other site 1408206003474 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1408206003475 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1408206003476 Protein of unknown function (DUF1461); Region: DUF1461; pfam07314 1408206003477 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 1408206003478 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 1408206003479 active site 1408206003480 motif I; other site 1408206003481 motif II; other site 1408206003482 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 1408206003483 Protein of unknown function (DUF1027); Region: DUF1027; pfam06265 1408206003484 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 1408206003485 putative active site [active] 1408206003486 putative metal binding site [ion binding]; other site 1408206003487 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1408206003488 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 1408206003489 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1408206003490 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 1408206003491 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1408206003492 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1408206003493 Type II/IV secretion system protein; Region: T2SE; pfam00437 1408206003494 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1408206003495 Walker A motif; other site 1408206003496 ATP binding site [chemical binding]; other site 1408206003497 Walker B motif; other site 1408206003498 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1408206003499 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 1408206003500 substrate binding site [chemical binding]; other site 1408206003501 dimer interface [polypeptide binding]; other site 1408206003502 ATP binding site [chemical binding]; other site 1408206003503 hypothetical protein; Validated; Region: PRK00110 1408206003504 DNA polymerase IV; Reviewed; Region: PRK03103 1408206003505 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 1408206003506 active site 1408206003507 DNA binding site [nucleotide binding] 1408206003508 elongation factor P; Validated; Region: PRK00529 1408206003509 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1408206003510 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 1408206003511 RNA binding site [nucleotide binding]; other site 1408206003512 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 1408206003513 RNA binding site [nucleotide binding]; other site 1408206003514 Isochorismatase family; Region: Isochorismatase; pfam00857 1408206003515 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 1408206003516 catalytic triad [active] 1408206003517 conserved cis-peptide bond; other site 1408206003518 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 1408206003519 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1408206003520 tetramer interface [polypeptide binding]; other site 1408206003521 active site 1408206003522 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1408206003523 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 1408206003524 GDP-binding site [chemical binding]; other site 1408206003525 ACT binding site; other site 1408206003526 IMP binding site; other site 1408206003527 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 1408206003528 amphipathic channel; other site 1408206003529 Asn-Pro-Ala signature motifs; other site 1408206003530 catabolite control protein A; Region: ccpA; TIGR01481 1408206003531 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1408206003532 DNA binding site [nucleotide binding] 1408206003533 domain linker motif; other site 1408206003534 Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation; Region: PBP1_CcpA_like; cd06298 1408206003535 dimerization interface [polypeptide binding]; other site 1408206003536 effector binding site; other site 1408206003537 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1408206003538 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1408206003539 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 1408206003540 active site 1408206003541 pyruvate oxidase; Region: pyruv_oxi_spxB; TIGR02720 1408206003542 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1408206003543 PYR/PP interface [polypeptide binding]; other site 1408206003544 dimer interface [polypeptide binding]; other site 1408206003545 tetramer interface [polypeptide binding]; other site 1408206003546 TPP binding site [chemical binding]; other site 1408206003547 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1408206003548 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 1408206003549 TPP-binding site [chemical binding]; other site 1408206003550 Bacterial protein of unknown function (DUF948); Region: DUF948; pfam06103 1408206003551 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1408206003552 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1408206003553 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 1408206003554 active site 1408206003555 dimerization interface [polypeptide binding]; other site 1408206003556 glutamate racemase; Provisional; Region: PRK00865 1408206003557 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 1408206003558 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1408206003559 catalytic residues [active] 1408206003560 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 1408206003561 MutS domain III; Region: MutS_III; pfam05192 1408206003562 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 1408206003563 Walker A/P-loop; other site 1408206003564 ATP binding site [chemical binding]; other site 1408206003565 Q-loop/lid; other site 1408206003566 ABC transporter signature motif; other site 1408206003567 Walker B; other site 1408206003568 D-loop; other site 1408206003569 H-loop/switch region; other site 1408206003570 Smr domain; Region: Smr; pfam01713 1408206003571 hypothetical protein; Provisional; Region: PRK13678 1408206003572 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1408206003573 hypothetical protein; Provisional; Region: PRK05473 1408206003574 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1408206003575 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 1408206003576 motif 1; other site 1408206003577 active site 1408206003578 motif 2; other site 1408206003579 motif 3; other site 1408206003580 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1408206003581 DHHA1 domain; Region: DHHA1; pfam02272 1408206003582 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 1408206003583 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1408206003584 ATP binding site [chemical binding]; other site 1408206003585 Mg++ binding site [ion binding]; other site 1408206003586 motif III; other site 1408206003587 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 1408206003588 nucleotide binding region [chemical binding]; other site 1408206003589 ATP-binding site [chemical binding]; other site 1408206003590 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1408206003591 DHH family; Region: DHH; pfam01368 1408206003592 DHHA1 domain; Region: DHHA1; pfam02272 1408206003593 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1408206003594 active site 1408206003595 DNA polymerase IV; Validated; Region: PRK02406 1408206003596 DNA binding site [nucleotide binding] 1408206003597 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1408206003598 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1408206003599 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1408206003600 Preprotein translocase subunit; Region: YajC; pfam02699 1408206003601 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1408206003602 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1408206003603 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1408206003604 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1408206003605 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1408206003606 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 1408206003607 Walker A motif; other site 1408206003608 ATP binding site [chemical binding]; other site 1408206003609 Walker B motif; other site 1408206003610 arginine finger; other site 1408206003611 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1408206003612 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1408206003613 RuvA N terminal domain; Region: RuvA_N; pfam01330 1408206003614 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1408206003615 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1408206003616 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 1408206003617 ATP binding site [chemical binding]; other site 1408206003618 Mg2+ binding site [ion binding]; other site 1408206003619 G-X-G motif; other site 1408206003620 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 1408206003621 ATP binding site [chemical binding]; other site 1408206003622 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1408206003623 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1408206003624 MutS domain I; Region: MutS_I; pfam01624 1408206003625 MutS domain II; Region: MutS_II; pfam05188 1408206003626 MutS domain III; Region: MutS_III; pfam05192 1408206003627 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1408206003628 Walker A/P-loop; other site 1408206003629 ATP binding site [chemical binding]; other site 1408206003630 Q-loop/lid; other site 1408206003631 ABC transporter signature motif; other site 1408206003632 Walker B; other site 1408206003633 D-loop; other site 1408206003634 H-loop/switch region; other site 1408206003635 phosphodiesterase; Provisional; Region: PRK12704 1408206003636 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1408206003637 Zn2+ binding site [ion binding]; other site 1408206003638 Mg2+ binding site [ion binding]; other site 1408206003639 recombinase A; Provisional; Region: recA; PRK09354 1408206003640 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 1408206003641 hexamer interface [polypeptide binding]; other site 1408206003642 Walker A motif; other site 1408206003643 ATP binding site [chemical binding]; other site 1408206003644 Walker B motif; other site 1408206003645 competence damage-inducible protein A; Provisional; Region: PRK00549 1408206003646 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 1408206003647 putative MPT binding site; other site 1408206003648 Competence-damaged protein; Region: CinA; pfam02464 1408206003649 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1408206003650 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 1408206003651 non-specific DNA binding site [nucleotide binding]; other site 1408206003652 salt bridge; other site 1408206003653 sequence-specific DNA binding site [nucleotide binding]; other site 1408206003654 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1408206003655 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1408206003656 NAD(P) binding site [chemical binding]; other site 1408206003657 active site 1408206003658 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1408206003659 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1408206003660 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1408206003661 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1408206003662 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 1408206003663 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1408206003664 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1408206003665 putative active site [active] 1408206003666 catalytic site [active] 1408206003667 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 1408206003668 putative active site [active] 1408206003669 catalytic site [active] 1408206003670 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1408206003671 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 1408206003672 substrate binding pocket [chemical binding]; other site 1408206003673 membrane-bound complex binding site; other site 1408206003674 hinge residues; other site 1408206003675 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1408206003676 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408206003677 Walker A/P-loop; other site 1408206003678 ATP binding site [chemical binding]; other site 1408206003679 Q-loop/lid; other site 1408206003680 ABC transporter signature motif; other site 1408206003681 Walker B; other site 1408206003682 D-loop; other site 1408206003683 H-loop/switch region; other site 1408206003684 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1408206003685 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 1408206003686 dimer interface [polypeptide binding]; other site 1408206003687 conserved gate region; other site 1408206003688 putative PBP binding loops; other site 1408206003689 ABC-ATPase subunit interface; other site 1408206003690 T-box leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408206003691 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 1408206003692 rod shape-determining protein MreC; Provisional; Region: PRK13922 1408206003693 rod shape-determining protein MreC; Region: MreC; pfam04085 1408206003694 hypothetical protein; Reviewed; Region: PRK00024 1408206003695 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1408206003696 MPN+ (JAMM) motif; other site 1408206003697 Zinc-binding site [ion binding]; other site 1408206003698 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1408206003699 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1408206003700 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1408206003701 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1408206003702 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1408206003703 active site 1408206003704 HIGH motif; other site 1408206003705 nucleotide binding site [chemical binding]; other site 1408206003706 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1408206003707 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1408206003708 active site 1408206003709 KMSKS motif; other site 1408206003710 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1408206003711 tRNA binding surface [nucleotide binding]; other site 1408206003712 anticodon binding site; other site 1408206003713 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1408206003714 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 1408206003715 dimer interface [polypeptide binding]; other site 1408206003716 catalytic triad [active] 1408206003717 peroxidatic and resolving cysteines [active] 1408206003718 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 1408206003719 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1408206003720 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 1408206003721 Ligand Binding Site [chemical binding]; other site 1408206003722 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1408206003723 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1408206003724 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1408206003725 catalytic residue [active] 1408206003726 Septation ring formation regulator, EzrA; Region: EzrA; pfam06160 1408206003727 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1408206003728 GAF domain; Region: GAF_2; pfam13185 1408206003729 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1408206003730 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1408206003731 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 1408206003732 RNA binding surface [nucleotide binding]; other site 1408206003733 recombination factor protein RarA; Reviewed; Region: PRK13342 1408206003734 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 1408206003735 Walker A motif; other site 1408206003736 ATP binding site [chemical binding]; other site 1408206003737 Walker B motif; other site 1408206003738 arginine finger; other site 1408206003739 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1408206003740 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1408206003741 Ligand Binding Site [chemical binding]; other site 1408206003742 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1408206003743 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1408206003744 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1408206003745 Protein of unknown function (DUF2785); Region: DUF2785; pfam10978 1408206003746 amino acid transporter; Region: 2A0306; TIGR00909 1408206003747 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1408206003748 Protein of unknown function (DUF975); Region: DUF975; cl10504 1408206003749 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1408206003750 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1408206003751 Walker A/P-loop; other site 1408206003752 ATP binding site [chemical binding]; other site 1408206003753 Q-loop/lid; other site 1408206003754 ABC transporter signature motif; other site 1408206003755 Walker B; other site 1408206003756 D-loop; other site 1408206003757 H-loop/switch region; other site 1408206003758 Predicted transcriptional regulators [Transcription]; Region: COG1725 1408206003759 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1408206003760 DNA-binding site [nucleotide binding]; DNA binding site 1408206003761 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1408206003762 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1408206003763 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 1408206003764 dimer interface [polypeptide binding]; other site 1408206003765 conserved gate region; other site 1408206003766 ABC-ATPase subunit interface; other site 1408206003767 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 1408206003768 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1408206003769 Walker A/P-loop; other site 1408206003770 ATP binding site [chemical binding]; other site 1408206003771 Q-loop/lid; other site 1408206003772 ABC transporter signature motif; other site 1408206003773 Walker B; other site 1408206003774 D-loop; other site 1408206003775 H-loop/switch region; other site 1408206003776 NIL domain; Region: NIL; pfam09383 1408206003777 T-box leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408206003778 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1408206003779 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 1408206003780 hypothetical protein; Validated; Region: PRK00041 1408206003781 Protein of unknown function (DUF1146); Region: DUF1146; pfam06612 1408206003782 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1408206003783 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1408206003784 gamma subunit interface [polypeptide binding]; other site 1408206003785 epsilon subunit interface [polypeptide binding]; other site 1408206003786 LBP interface [polypeptide binding]; other site 1408206003787 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1408206003788 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1408206003789 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 1408206003790 alpha subunit interaction interface [polypeptide binding]; other site 1408206003791 Walker A motif; other site 1408206003792 ATP binding site [chemical binding]; other site 1408206003793 Walker B motif; other site 1408206003794 inhibitor binding site; inhibition site 1408206003795 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1408206003796 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1408206003797 core domain interface [polypeptide binding]; other site 1408206003798 delta subunit interface [polypeptide binding]; other site 1408206003799 epsilon subunit interface [polypeptide binding]; other site 1408206003800 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1408206003801 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1408206003802 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 1408206003803 beta subunit interaction interface [polypeptide binding]; other site 1408206003804 Walker A motif; other site 1408206003805 ATP binding site [chemical binding]; other site 1408206003806 Walker B motif; other site 1408206003807 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1408206003808 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1408206003809 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1408206003810 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1408206003811 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1408206003812 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1408206003813 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1408206003814 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1408206003815 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1408206003816 active site 1408206003817 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1408206003818 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 1408206003819 dimer interface [polypeptide binding]; other site 1408206003820 active site 1408206003821 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1408206003822 folate binding site [chemical binding]; other site 1408206003823 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1408206003824 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1408206003825 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1408206003826 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 1408206003827 S-adenosylmethionine binding site [chemical binding]; other site 1408206003828 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1408206003829 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1408206003830 RF-1 domain; Region: RF-1; pfam00472 1408206003831 thymidine kinase; Provisional; Region: PRK04296 1408206003832 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1408206003833 ATP binding site [chemical binding]; other site 1408206003834 Walker A motif; other site 1408206003835 Walker B motif; other site 1408206003836 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 1408206003837 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1408206003838 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 1408206003839 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1408206003840 catalytic triad [active] 1408206003841 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 1408206003842 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 1408206003843 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1408206003844 Beta-lactamase; Region: Beta-lactamase; pfam00144 1408206003845 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1408206003846 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1408206003847 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1408206003848 Walker A/P-loop; other site 1408206003849 ATP binding site [chemical binding]; other site 1408206003850 Q-loop/lid; other site 1408206003851 ABC transporter signature motif; other site 1408206003852 Walker B; other site 1408206003853 D-loop; other site 1408206003854 H-loop/switch region; other site 1408206003855 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1408206003856 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1408206003857 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408206003858 Walker A/P-loop; other site 1408206003859 ATP binding site [chemical binding]; other site 1408206003860 Q-loop/lid; other site 1408206003861 ABC transporter signature motif; other site 1408206003862 Walker B; other site 1408206003863 D-loop; other site 1408206003864 H-loop/switch region; other site 1408206003865 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1408206003866 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1408206003867 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1408206003868 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1408206003869 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1408206003870 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 1408206003871 active site residue [active] 1408206003872 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1408206003873 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 1408206003874 HicB family; Region: HicB; pfam05534 1408206003875 Predicted flavoprotein [General function prediction only]; Region: COG0431 1408206003876 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1408206003877 PAS domain; Region: PAS_10; pfam13596 1408206003878 Predicted flavoprotein [General function prediction only]; Region: COG0431 1408206003879 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1408206003880 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1408206003881 ApbE family; Region: ApbE; pfam02424 1408206003882 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 1408206003883 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 1408206003884 active site 1408206003885 dimer interface [polypeptide binding]; other site 1408206003886 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 1408206003887 dimer interface [polypeptide binding]; other site 1408206003888 active site 1408206003889 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 1408206003890 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 1408206003891 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1408206003892 intersubunit interface [polypeptide binding]; other site 1408206003893 active site 1408206003894 zinc binding site [ion binding]; other site 1408206003895 Na+ binding site [ion binding]; other site 1408206003896 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1408206003897 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 1408206003898 dimerization interface [polypeptide binding]; other site 1408206003899 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 1408206003900 dimer interface [polypeptide binding]; other site 1408206003901 phosphorylation site [posttranslational modification] 1408206003902 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 1408206003903 ATP binding site [chemical binding]; other site 1408206003904 Mg2+ binding site [ion binding]; other site 1408206003905 G-X-G motif; other site 1408206003906 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1408206003907 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 1408206003908 active site 1408206003909 phosphorylation site [posttranslational modification] 1408206003910 intermolecular recognition site; other site 1408206003911 dimerization interface [polypeptide binding]; other site 1408206003912 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 1408206003913 DNA binding site [nucleotide binding] 1408206003914 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1408206003915 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1408206003916 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 1408206003917 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1408206003918 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1408206003919 Coenzyme A binding pocket [chemical binding]; other site 1408206003920 polyribonucleotide nucleotidyltransferase; Region: polynuc_phos; TIGR03591 1408206003921 Protein of unknown function (DUF1093); Region: DUF1093; pfam06486 1408206003922 GntP family permease; Region: GntP_permease; pfam02447 1408206003923 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1408206003924 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 1408206003925 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 1408206003926 N- and C-terminal domain interface [polypeptide binding]; other site 1408206003927 active site 1408206003928 catalytic site [active] 1408206003929 metal binding site [ion binding]; metal-binding site 1408206003930 carbohydrate binding site [chemical binding]; other site 1408206003931 ATP binding site [chemical binding]; other site 1408206003932 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1408206003933 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 1408206003934 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1408206003935 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1408206003936 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 1408206003937 putative active site [active] 1408206003938 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 1408206003939 H+ Antiporter protein; Region: 2A0121; TIGR00900 1408206003940 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 1408206003941 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1408206003942 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1408206003943 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 1408206003944 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 1408206003945 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1408206003946 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 1408206003947 S-adenosylmethionine binding site [chemical binding]; other site 1408206003948 putative lipid kinase; Reviewed; Region: PRK13055 1408206003949 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1408206003950 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1408206003951 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1408206003952 GatB domain; Region: GatB_Yqey; smart00845 1408206003953 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1408206003954 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1408206003955 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1408206003956 N-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_1; cd13441 1408206003957 putative dimer interface [polypeptide binding]; other site 1408206003958 CamS sex pheromone cAM373 precursor; Region: CamS; pfam07537 1408206003959 C-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_2; cd13440 1408206003960 putative dimer interface [polypeptide binding]; other site 1408206003961 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1408206003962 Part of AAA domain; Region: AAA_19; pfam13245 1408206003963 Family description; Region: UvrD_C_2; pfam13538 1408206003964 Phosphoribosylaminoimidazole carboxylase (NCAIR synthetase) [Nucleotide transport and metabolism]; Region: PurK; COG0026 1408206003965 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1408206003966 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1408206003967 active site 1408206003968 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1408206003969 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1408206003970 Predicted membrane protein [Function unknown]; Region: COG4684 1408206003971 Phosphoglycerate Dehydrogenase, 2-hydroxyacid dehydrogenase family; Region: PGDH_1; cd12155 1408206003972 putative ligand binding site [chemical binding]; other site 1408206003973 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1408206003974 NAD binding site [chemical binding]; other site 1408206003975 catalytic site [active] 1408206003976 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_b2; cd09204 1408206003977 PLD-like domain; Region: PLDc_2; pfam13091 1408206003978 putative homodimer interface [polypeptide binding]; other site 1408206003979 putative active site [active] 1408206003980 catalytic site [active] 1408206003981 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1408206003982 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 1408206003983 ATP binding site [chemical binding]; other site 1408206003984 putative Mg++ binding site [ion binding]; other site 1408206003985 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 1408206003986 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1408206003987 nucleotide binding region [chemical binding]; other site 1408206003988 ATP-binding site [chemical binding]; other site 1408206003989 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 1408206003990 Ferritin-like domain; Region: Ferritin; pfam00210 1408206003991 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1408206003992 dimerization interface [polypeptide binding]; other site 1408206003993 DPS ferroxidase diiron center [ion binding]; other site 1408206003994 ion pore; other site 1408206003995 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 1408206003996 non-specific DNA binding site [nucleotide binding]; other site 1408206003997 salt bridge; other site 1408206003998 sequence-specific DNA binding site [nucleotide binding]; other site 1408206003999 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 1408206004000 salt bridge; other site 1408206004001 non-specific DNA binding site [nucleotide binding]; other site 1408206004002 sequence-specific DNA binding site [nucleotide binding]; other site 1408206004003 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1408206004004 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 1408206004005 23S rRNA interface [nucleotide binding]; other site 1408206004006 L3 interface [polypeptide binding]; other site 1408206004007 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1408206004008 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1408206004009 dimerization interface 3.5A [polypeptide binding]; other site 1408206004010 active site 1408206004011 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1408206004012 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 1408206004013 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1408206004014 Walker A/P-loop; other site 1408206004015 ATP binding site [chemical binding]; other site 1408206004016 Q-loop/lid; other site 1408206004017 ABC transporter signature motif; other site 1408206004018 Walker B; other site 1408206004019 D-loop; other site 1408206004020 H-loop/switch region; other site 1408206004021 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 1408206004022 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1408206004023 Walker A/P-loop; other site 1408206004024 ATP binding site [chemical binding]; other site 1408206004025 Q-loop/lid; other site 1408206004026 ABC transporter signature motif; other site 1408206004027 Walker B; other site 1408206004028 D-loop; other site 1408206004029 H-loop/switch region; other site 1408206004030 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1408206004031 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1408206004032 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1408206004033 alphaNTD homodimer interface [polypeptide binding]; other site 1408206004034 alphaNTD - beta interaction site [polypeptide binding]; other site 1408206004035 alphaNTD - beta' interaction site [polypeptide binding]; other site 1408206004036 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1408206004037 30S ribosomal protein S11; Validated; Region: PRK05309 1408206004038 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1408206004039 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1408206004040 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 1408206004041 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 1408206004042 rRNA binding site [nucleotide binding]; other site 1408206004043 predicted 30S ribosome binding site; other site 1408206004044 adenylate kinase; Reviewed; Region: adk; PRK00279 1408206004045 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 1408206004046 AMP-binding site [chemical binding]; other site 1408206004047 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1408206004048 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1408206004049 SecY translocase; Region: SecY; pfam00344 1408206004050 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1408206004051 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 1408206004052 23S rRNA binding site [nucleotide binding]; other site 1408206004053 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1408206004054 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1408206004055 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1408206004056 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 1408206004057 5S rRNA interface [nucleotide binding]; other site 1408206004058 L27 interface [polypeptide binding]; other site 1408206004059 23S rRNA interface [nucleotide binding]; other site 1408206004060 L5 interface [polypeptide binding]; other site 1408206004061 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1408206004062 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1408206004063 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1408206004064 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1408206004065 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 1408206004066 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1408206004067 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1408206004068 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1408206004069 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1408206004070 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1408206004071 RNA binding site [nucleotide binding]; other site 1408206004072 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1408206004073 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1408206004074 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 1408206004075 23S rRNA interface [nucleotide binding]; other site 1408206004076 putative translocon interaction site; other site 1408206004077 signal recognition particle (SRP54) interaction site; other site 1408206004078 L23 interface [polypeptide binding]; other site 1408206004079 trigger factor interaction site; other site 1408206004080 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 1408206004081 23S rRNA interface [nucleotide binding]; other site 1408206004082 5S rRNA interface [nucleotide binding]; other site 1408206004083 putative antibiotic binding site [chemical binding]; other site 1408206004084 L25 interface [polypeptide binding]; other site 1408206004085 L27 interface [polypeptide binding]; other site 1408206004086 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1408206004087 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 1408206004088 G-X-X-G motif; other site 1408206004089 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1408206004090 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 1408206004091 putative translocon binding site; other site 1408206004092 protein-rRNA interface [nucleotide binding]; other site 1408206004093 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1408206004094 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1408206004095 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1408206004096 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1408206004097 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1408206004098 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1408206004099 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1408206004100 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1408206004101 elongation factor G; Reviewed; Region: PRK12739 1408206004102 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1408206004103 G1 box; other site 1408206004104 putative GEF interaction site [polypeptide binding]; other site 1408206004105 GTP/Mg2+ binding site [chemical binding]; other site 1408206004106 Switch I region; other site 1408206004107 G2 box; other site 1408206004108 G3 box; other site 1408206004109 Switch II region; other site 1408206004110 G4 box; other site 1408206004111 G5 box; other site 1408206004112 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 1408206004113 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 1408206004114 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 1408206004115 30S ribosomal protein S7; Validated; Region: PRK05302 1408206004116 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 1408206004117 S17 interaction site [polypeptide binding]; other site 1408206004118 S8 interaction site; other site 1408206004119 16S rRNA interaction site [nucleotide binding]; other site 1408206004120 streptomycin interaction site [chemical binding]; other site 1408206004121 23S rRNA interaction site [nucleotide binding]; other site 1408206004122 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1408206004123 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1408206004124 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 1408206004125 nuc_hydro_ TvIAG: Nucleoside hydrolases similar to the Inosine-adenosine-guanosine-preferring nucleoside hydrolase from Trypanosoma vivax. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base; Region: nuc_hydro_TvIAG; cd02647 1408206004126 active site 1408206004127 dimerization interface [polypeptide binding]; other site 1408206004128 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 1408206004129 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1408206004130 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1408206004131 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1408206004132 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1408206004133 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1408206004134 cleft; other site 1408206004135 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 1408206004136 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1408206004137 DNA binding site [nucleotide binding] 1408206004138 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1408206004139 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1408206004140 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 1408206004141 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1408206004142 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 1408206004143 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 1408206004144 RPB1 interaction site [polypeptide binding]; other site 1408206004145 RPB10 interaction site [polypeptide binding]; other site 1408206004146 RPB11 interaction site [polypeptide binding]; other site 1408206004147 RPB3 interaction site [polypeptide binding]; other site 1408206004148 RPB12 interaction site [polypeptide binding]; other site 1408206004149 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1408206004150 Clp amino terminal domain; Region: Clp_N; pfam02861 1408206004151 Clp amino terminal domain; Region: Clp_N; pfam02861 1408206004152 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 1408206004153 Walker A motif; other site 1408206004154 ATP binding site [chemical binding]; other site 1408206004155 Walker B motif; other site 1408206004156 arginine finger; other site 1408206004157 UvrB/uvrC motif; Region: UVR; pfam02151 1408206004158 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 1408206004159 Walker A motif; other site 1408206004160 ATP binding site [chemical binding]; other site 1408206004161 Walker B motif; other site 1408206004162 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1408206004163 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 1408206004164 seryl-tRNA synthetase; Provisional; Region: PRK05431 1408206004165 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1408206004166 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 1408206004167 dimer interface [polypeptide binding]; other site 1408206004168 active site 1408206004169 motif 1; other site 1408206004170 motif 2; other site 1408206004171 motif 3; other site 1408206004172 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 1408206004173 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 1408206004174 Substrate-binding site [chemical binding]; other site 1408206004175 Substrate specificity [chemical binding]; other site 1408206004176 lysine transporter; Provisional; Region: PRK10836 1408206004177 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1408206004178 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1408206004179 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1408206004180 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 1408206004181 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1408206004182 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1408206004183 nucleotide binding site [chemical binding]; other site 1408206004184 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 1408206004185 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1408206004186 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1408206004187 cspA; Derived by automated computational analysis using gene prediction method: cmsearch. 1408206004188 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1408206004189 DNA-binding site [nucleotide binding]; DNA binding site 1408206004190 RNA-binding motif; other site 1408206004191 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 1408206004192 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1408206004193 active site 1408206004194 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1408206004195 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1408206004196 Zn2+ binding site [ion binding]; other site 1408206004197 Mg2+ binding site [ion binding]; other site 1408206004198 phosphodiesterase; Provisional; Region: PRK12704 1408206004199 KH domain; Region: KH_1; pfam00013 1408206004200 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1408206004201 Zn2+ binding site [ion binding]; other site 1408206004202 Mg2+ binding site [ion binding]; other site 1408206004203 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1408206004204 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1408206004205 active site 1408206004206 xanthine permease; Region: pbuX; TIGR03173 1408206004207 Peptidase family C69; Region: Peptidase_C69; pfam03577 1408206004208 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1408206004209 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1408206004210 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1408206004211 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1408206004212 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1408206004213 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 1408206004214 purine monophosphate binding site [chemical binding]; other site 1408206004215 dimer interface [polypeptide binding]; other site 1408206004216 putative catalytic residues [active] 1408206004217 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1408206004218 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1408206004219 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1408206004220 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1408206004221 active site 1408206004222 substrate binding site [chemical binding]; other site 1408206004223 cosubstrate binding site; other site 1408206004224 catalytic site [active] 1408206004225 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1408206004226 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 1408206004227 dimerization interface [polypeptide binding]; other site 1408206004228 putative ATP binding site [chemical binding]; other site 1408206004229 amidophosphoribosyltransferase; Provisional; Region: PRK07272 1408206004230 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 1408206004231 active site 1408206004232 tetramer interface [polypeptide binding]; other site 1408206004233 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1408206004234 active site 1408206004235 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 1408206004236 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 1408206004237 dimerization interface [polypeptide binding]; other site 1408206004238 ATP binding site [chemical binding]; other site 1408206004239 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 1408206004240 dimerization interface [polypeptide binding]; other site 1408206004241 ATP binding site [chemical binding]; other site 1408206004242 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 1408206004243 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1408206004244 putative active site [active] 1408206004245 catalytic triad [active] 1408206004246 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 1408206004247 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1408206004248 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1408206004249 ATP binding site [chemical binding]; other site 1408206004250 active site 1408206004251 substrate binding site [chemical binding]; other site 1408206004252 phosphoribosylaminoimidazole carboxylase, PurK protein; Region: purK; TIGR01161 1408206004253 ATP-grasp domain; Region: ATP-grasp; pfam02222 1408206004254 AIR carboxylase; Region: AIRC; pfam00731 1408206004255 T-box leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408206004256 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 1408206004257 dimer interface [polypeptide binding]; other site 1408206004258 active site 1408206004259 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 1408206004260 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 1408206004261 CoA binding domain; Region: CoA_binding; pfam02629 1408206004262 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1408206004263 Beta-lactamase; Region: Beta-lactamase; pfam00144 1408206004264 UGMP family protein; Validated; Region: PRK09604 1408206004265 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1408206004266 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1408206004267 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1408206004268 Coenzyme A binding pocket [chemical binding]; other site 1408206004269 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1408206004270 Glycoprotease family; Region: Peptidase_M22; pfam00814 1408206004271 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1408206004272 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1408206004273 NAD binding site [chemical binding]; other site 1408206004274 homodimer interface [polypeptide binding]; other site 1408206004275 active site 1408206004276 substrate binding site [chemical binding]; other site 1408206004277 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 1408206004278 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 1408206004279 active site 1408206004280 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1408206004281 active site 2 [active] 1408206004282 Predicted methyltransferases [General function prediction only]; Region: COG0313 1408206004283 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1408206004284 putative SAM binding site [chemical binding]; other site 1408206004285 putative homodimer interface [polypeptide binding]; other site 1408206004286 Protein of unknown function (DUF972); Region: DUF972; pfam06156 1408206004287 DNA polymerase III subunit delta'; Validated; Region: PRK08058 1408206004288 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1408206004289 Protein of unknown function (DUF970); Region: DUF970; pfam06153 1408206004290 thymidylate kinase; Validated; Region: tmk; PRK00698 1408206004291 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 1408206004292 TMP-binding site; other site 1408206004293 ATP-binding site [chemical binding]; other site 1408206004294 recombination protein RecR; Reviewed; Region: recR; PRK00076 1408206004295 RecR protein; Region: RecR; pfam02132 1408206004296 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 1408206004297 putative active site [active] 1408206004298 putative metal-binding site [ion binding]; other site 1408206004299 tetramer interface [polypeptide binding]; other site 1408206004300 hypothetical protein; Validated; Region: PRK00153 1408206004301 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 1408206004302 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 1408206004303 Walker A motif; other site 1408206004304 ATP binding site [chemical binding]; other site 1408206004305 Walker B motif; other site 1408206004306 arginine finger; other site 1408206004307 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1408206004308 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 1408206004309 nucleoside/Zn binding site; other site 1408206004310 dimer interface [polypeptide binding]; other site 1408206004311 catalytic motif [active] 1408206004312 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1408206004313 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1408206004314 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 1408206004315 S-adenosylmethionine binding site [chemical binding]; other site 1408206004316 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 1408206004317 catalytic residues [active] 1408206004318 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 1408206004319 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 1408206004320 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1408206004321 active site 1408206004322 dimer interface [polypeptide binding]; other site 1408206004323 catalytic residues [active] 1408206004324 effector binding site; other site 1408206004325 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1408206004326 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1408206004327 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1408206004328 dimer interface [polypeptide binding]; other site 1408206004329 putative radical transfer pathway; other site 1408206004330 diiron center [ion binding]; other site 1408206004331 tyrosyl radical; other site 1408206004332 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 1408206004333 core dimer interface [polypeptide binding]; other site 1408206004334 peripheral dimer interface [polypeptide binding]; other site 1408206004335 L10 interface [polypeptide binding]; other site 1408206004336 L11 interface [polypeptide binding]; other site 1408206004337 putative EF-Tu interaction site [polypeptide binding]; other site 1408206004338 putative EF-G interaction site [polypeptide binding]; other site 1408206004339 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 1408206004340 23S rRNA interface [nucleotide binding]; other site 1408206004341 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1408206004342 L10 leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408206004343 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 1408206004344 mRNA/rRNA interface [nucleotide binding]; other site 1408206004345 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1408206004346 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 1408206004347 23S rRNA interface [nucleotide binding]; other site 1408206004348 L7/L12 interface [polypeptide binding]; other site 1408206004349 putative thiostrepton binding site; other site 1408206004350 L25 interface [polypeptide binding]; other site 1408206004351 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1408206004352 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1408206004353 putative homodimer interface [polypeptide binding]; other site 1408206004354 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1408206004355 heterodimer interface [polypeptide binding]; other site 1408206004356 homodimer interface [polypeptide binding]; other site 1408206004357 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 1408206004358 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 1408206004359 RNA polymerase factor sigma-70; Validated; Region: PRK08295 1408206004360 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 1408206004361 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1408206004362 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1408206004363 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 1408206004364 dimerization interface [polypeptide binding]; other site 1408206004365 active site 1408206004366 metal binding site [ion binding]; metal-binding site 1408206004367 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1408206004368 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1408206004369 active site 1408206004370 HIGH motif; other site 1408206004371 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1408206004372 KMSKS motif; other site 1408206004373 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1408206004374 tRNA binding surface [nucleotide binding]; other site 1408206004375 anticodon binding site; other site 1408206004376 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1408206004377 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1408206004378 active site 1408206004379 HIGH motif; other site 1408206004380 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1408206004381 active site 1408206004382 KMSKS motif; other site 1408206004383 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 1408206004384 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 1408206004385 putative active site [active] 1408206004386 DNA repair protein RadA; Provisional; Region: PRK11823 1408206004387 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 1408206004388 Walker A motif/ATP binding site; other site 1408206004389 ATP binding site [chemical binding]; other site 1408206004390 Walker B motif; other site 1408206004391 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1408206004392 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1408206004393 trimer interface [polypeptide binding]; other site 1408206004394 active site 1408206004395 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1408206004396 Coenzyme A binding pocket [chemical binding]; other site 1408206004397 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 1408206004398 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1408206004399 active site 1408206004400 dimer interface [polypeptide binding]; other site 1408206004401 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is...; Region: Peptidase_C1B; cd00585 1408206004402 trimer interface [polypeptide binding]; other site 1408206004403 active site 1408206004404 G bulge; other site 1408206004405 Predicted transcriptional regulators [Transcription]; Region: COG1733 1408206004406 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1408206004407 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 1408206004408 putative substrate translocation pore; other site 1408206004409 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1408206004410 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 1408206004411 catalytic core [active] 1408206004412 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 1408206004413 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1408206004414 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 1408206004415 dimer interface [polypeptide binding]; other site 1408206004416 active site 1408206004417 CoA binding pocket [chemical binding]; other site 1408206004418 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 1408206004419 active site 1408206004420 phosphorylation site [posttranslational modification] 1408206004421 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1408206004422 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 1408206004423 Walker A motif; other site 1408206004424 ATP binding site [chemical binding]; other site 1408206004425 Walker B motif; other site 1408206004426 arginine finger; other site 1408206004427 Transcriptional antiterminator [Transcription]; Region: COG3933 1408206004428 PRD domain; Region: PRD; pfam00874 1408206004429 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 1408206004430 active pocket/dimerization site; other site 1408206004431 active site 1408206004432 phosphorylation site [posttranslational modification] 1408206004433 Domain of unknown function (DUF956); Region: DUF956; pfam06115 1408206004434 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 1408206004435 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 1408206004436 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1408206004437 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 1408206004438 active pocket/dimerization site; other site 1408206004439 active site 1408206004440 phosphorylation site [posttranslational modification] 1408206004441 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 1408206004442 active site 1408206004443 phosphorylation site [posttranslational modification] 1408206004444 hypothetical protein; Provisional; Region: PRK04351 1408206004445 SprT homologues; Region: SprT; cl01182 1408206004446 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1408206004447 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1408206004448 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1408206004449 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 1408206004450 RNA binding site [nucleotide binding]; other site 1408206004451 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1408206004452 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1408206004453 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1408206004454 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1408206004455 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1408206004456 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1408206004457 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1408206004458 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 1408206004459 homodimer interface [polypeptide binding]; other site 1408206004460 NAD binding pocket [chemical binding]; other site 1408206004461 ATP binding pocket [chemical binding]; other site 1408206004462 Mg binding site [ion binding]; other site 1408206004463 active-site loop [active] 1408206004464 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1408206004465 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 1408206004466 active site 1408206004467 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1408206004468 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 1408206004469 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1408206004470 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1408206004471 DNA-binding site [nucleotide binding]; DNA binding site 1408206004472 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1408206004473 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1408206004474 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 1408206004475 active site 1408206004476 dimer interface [polypeptide binding]; other site 1408206004477 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1408206004478 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1408206004479 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1408206004480 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1408206004481 active site 1408206004482 metal binding site [ion binding]; metal-binding site 1408206004483 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 1408206004484 RibD C-terminal domain; Region: RibD_C; cl17279 1408206004485 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1408206004486 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1408206004487 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 1408206004488 putative substrate translocation pore; other site 1408206004489 POT family; Region: PTR2; cl17359 1408206004490 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1408206004491 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 1408206004492 dimer interface [polypeptide binding]; other site 1408206004493 putative anticodon binding site; other site 1408206004494 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 1408206004495 motif 1; other site 1408206004496 active site 1408206004497 motif 2; other site 1408206004498 motif 3; other site 1408206004499 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1408206004500 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 1408206004501 FMN binding site [chemical binding]; other site 1408206004502 active site 1408206004503 catalytic residues [active] 1408206004504 substrate binding site [chemical binding]; other site 1408206004505 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1408206004506 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 1408206004507 dimerization interface [polypeptide binding]; other site 1408206004508 domain crossover interface; other site 1408206004509 redox-dependent activation switch; other site 1408206004510 FtsH Extracellular; Region: FtsH_ext; pfam06480 1408206004511 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1408206004512 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 1408206004513 Walker A motif; other site 1408206004514 ATP binding site [chemical binding]; other site 1408206004515 Walker B motif; other site 1408206004516 arginine finger; other site 1408206004517 Peptidase family M41; Region: Peptidase_M41; pfam01434 1408206004518 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1408206004519 active site 1408206004520 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1408206004521 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 1408206004522 Ligand Binding Site [chemical binding]; other site 1408206004523 TilS substrate C-terminal domain; Region: TilS_C; smart00977 1408206004524 hypothetical protein; Provisional; Region: PRK08582 1408206004525 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...; Region: S1_RPS1_repeat_hs4; cd05692 1408206004526 RNA binding site [nucleotide binding]; other site 1408206004527 Septum formation initiator; Region: DivIC; pfam04977 1408206004528 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1408206004529 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 1408206004530 RNA binding surface [nucleotide binding]; other site 1408206004531 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1408206004532 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1408206004533 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1408206004534 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1408206004535 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 1408206004536 ATP binding site [chemical binding]; other site 1408206004537 putative Mg++ binding site [ion binding]; other site 1408206004538 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 1408206004539 nucleotide binding region [chemical binding]; other site 1408206004540 ATP-binding site [chemical binding]; other site 1408206004541 TRCF domain; Region: TRCF; pfam03461 1408206004542 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 1408206004543 putative active site [active] 1408206004544 catalytic residue [active] 1408206004545 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 1408206004546 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1408206004547 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1408206004548 NAD binding site [chemical binding]; other site 1408206004549 dimer interface [polypeptide binding]; other site 1408206004550 substrate binding site [chemical binding]; other site 1408206004551 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1408206004552 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1408206004553 FOG: CBS domain [General function prediction only]; Region: COG0517 1408206004554 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; cd02205 1408206004555 PemK-like protein; Region: PemK; pfam02452 1408206004556 alanine racemase; Reviewed; Region: alr; PRK00053 1408206004557 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1408206004558 active site 1408206004559 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1408206004560 dimer interface [polypeptide binding]; other site 1408206004561 substrate binding site [chemical binding]; other site 1408206004562 catalytic residues [active] 1408206004563 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1408206004564 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 1408206004565 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1408206004566 ATP binding site [chemical binding]; other site 1408206004567 Mg++ binding site [ion binding]; other site 1408206004568 motif III; other site 1408206004569 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 1408206004570 nucleotide binding region [chemical binding]; other site 1408206004571 ATP-binding site [chemical binding]; other site 1408206004572 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1408206004573 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1408206004574 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1408206004575 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1408206004576 heat shock protein HtpX; Provisional; Region: PRK04897 1408206004577 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1408206004578 Sortase A (SrtA) or subfamily-1 sortases are cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the...; Region: Sortase_A_1; cd06165 1408206004579 active site 1408206004580 catalytic site [active] 1408206004581 drug efflux system protein MdtG; Provisional; Region: PRK09874 1408206004582 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 1408206004583 putative substrate translocation pore; other site 1408206004584 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1408206004585 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1408206004586 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 1408206004587 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 1408206004588 RNA binding site [nucleotide binding]; other site 1408206004589 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 1408206004590 multimer interface [polypeptide binding]; other site 1408206004591 Walker A motif; other site 1408206004592 ATP binding site [chemical binding]; other site 1408206004593 Walker B motif; other site 1408206004594 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1408206004595 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 1408206004596 hinge; other site 1408206004597 active site 1408206004598 CTP synthetase; Validated; Region: pyrG; PRK05380 1408206004599 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 1408206004600 Catalytic site [active] 1408206004601 active site 1408206004602 UTP binding site [chemical binding]; other site 1408206004603 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1408206004604 active site 1408206004605 putative oxyanion hole; other site 1408206004606 catalytic triad [active] 1408206004607 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 1408206004608 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 1408206004609 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 1408206004610 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1408206004611 Zn2+ binding site [ion binding]; other site 1408206004612 Mg2+ binding site [ion binding]; other site 1408206004613 sugar phosphate phosphatase; Provisional; Region: PRK10513 1408206004614 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 1408206004615 active site 1408206004616 motif I; other site 1408206004617 motif II; other site 1408206004618 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 1408206004619 Domain of unknown function (DUF3899); Region: DUF3899; pfam13038 1408206004620 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1408206004621 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1408206004622 nucleotide binding site [chemical binding]; other site 1408206004623 butyrate kinase; Region: butyr_kinase; TIGR02707 1408206004624 CAAX protease self-immunity; Region: Abi; pfam02517 1408206004625 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1408206004626 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 1408206004627 motif II; other site 1408206004628 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1408206004629 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1408206004630 peptide binding site [polypeptide binding]; other site 1408206004631 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1408206004632 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1408206004633 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1408206004634 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1408206004635 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 1408206004636 DltD N-terminal region; Region: DltD_N; pfam04915 1408206004637 DltD central region; Region: DltD_M; pfam04918 1408206004638 DltD C-terminal region; Region: DltD_C; pfam04914 1408206004639 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 1408206004640 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 1408206004641 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 1408206004642 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 1408206004643 acyl-activating enzyme (AAE) consensus motif; other site 1408206004644 AMP binding site [chemical binding]; other site 1408206004645 D-Ala-teichoic acid biosynthesis protein; Region: DUF3687; pfam12459 1408206004646 BioY family; Region: BioY; pfam02632 1408206004647 Predicted membrane protein [Function unknown]; Region: COG3601 1408206004648 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1408206004649 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 1408206004650 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1408206004651 DNA binding residues [nucleotide binding] 1408206004652 putative dimer interface [polypeptide binding]; other site 1408206004653 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1408206004654 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 1408206004655 putative substrate translocation pore; other site 1408206004656 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 1408206004657 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 1408206004658 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 1408206004659 Beta-lactamase; Region: Beta-lactamase; pfam00144 1408206004660 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1408206004661 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1408206004662 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1408206004663 Walker A/P-loop; other site 1408206004664 ATP binding site [chemical binding]; other site 1408206004665 Q-loop/lid; other site 1408206004666 ABC transporter signature motif; other site 1408206004667 Walker B; other site 1408206004668 D-loop; other site 1408206004669 H-loop/switch region; other site 1408206004670 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1408206004671 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1408206004672 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 1408206004673 active site 1408206004674 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 1408206004675 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 1408206004676 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 1408206004677 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 1408206004678 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1408206004679 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1408206004680 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1408206004681 Ligand binding site; other site 1408206004682 Putative Catalytic site; other site 1408206004683 DXD motif; other site 1408206004684 Predicted membrane protein [Function unknown]; Region: COG2246 1408206004685 GtrA-like protein; Region: GtrA; pfam04138 1408206004686 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1408206004687 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 1408206004688 nucleotide binding pocket [chemical binding]; other site 1408206004689 K-X-D-G motif; other site 1408206004690 catalytic site [active] 1408206004691 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1408206004692 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1408206004693 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 1408206004694 Dimer interface [polypeptide binding]; other site 1408206004695 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 1408206004696 active site 1408206004697 putative catalytic site [active] 1408206004698 DNA binding site [nucleotide binding] 1408206004699 putative phosphate binding site [ion binding]; other site 1408206004700 metal binding site A [ion binding]; metal-binding site 1408206004701 AP binding site [nucleotide binding]; other site 1408206004702 metal binding site B [ion binding]; metal-binding site 1408206004703 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1408206004704 substrate binding site [chemical binding]; other site 1408206004705 Membrane transport protein; Region: Mem_trans; cl09117 1408206004706 malate dehydrogenase; Provisional; Region: PRK13529 1408206004707 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1408206004708 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 1408206004709 NAD(P) binding site [chemical binding]; other site 1408206004710 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1408206004711 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1408206004712 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 1408206004713 dimerization interface [polypeptide binding]; other site 1408206004714 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 1408206004715 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1408206004716 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1408206004717 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1408206004718 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 1408206004719 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1408206004720 active site 1408206004721 catalytic tetrad [active] 1408206004722 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1408206004723 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 1408206004724 motif II; other site 1408206004725 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1408206004726 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 1408206004727 Cl- selectivity filter; other site 1408206004728 Cl- binding residues [ion binding]; other site 1408206004729 pore gating glutamate residue; other site 1408206004730 dimer interface [polypeptide binding]; other site 1408206004731 H+/Cl- coupling transport residue; other site 1408206004732 TrkA-C domain; Region: TrkA_C; pfam02080 1408206004733 glycerol kinase; Provisional; Region: glpK; PRK00047 1408206004734 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1408206004735 N- and C-terminal domain interface [polypeptide binding]; other site 1408206004736 active site 1408206004737 MgATP binding site [chemical binding]; other site 1408206004738 catalytic site [active] 1408206004739 metal binding site [ion binding]; metal-binding site 1408206004740 glycerol binding site [chemical binding]; other site 1408206004741 homotetramer interface [polypeptide binding]; other site 1408206004742 homodimer interface [polypeptide binding]; other site 1408206004743 FBP binding site [chemical binding]; other site 1408206004744 protein IIAGlc interface [polypeptide binding]; other site 1408206004745 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1408206004746 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 1408206004747 amphipathic channel; other site 1408206004748 Asn-Pro-Ala signature motifs; other site 1408206004749 Predicted membrane protein [Function unknown]; Region: COG1288 1408206004750 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 1408206004751 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1408206004752 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1408206004753 arginine deiminase; Provisional; Region: PRK01388 1408206004754 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 1408206004755 carbamate kinase; Reviewed; Region: PRK12686 1408206004756 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1408206004757 putative substrate binding site [chemical binding]; other site 1408206004758 nucleotide binding site [chemical binding]; other site 1408206004759 nucleotide binding site [chemical binding]; other site 1408206004760 homodimer interface [polypeptide binding]; other site 1408206004761 ornithine carbamoyltransferase; Provisional; Region: PRK04284 1408206004762 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1408206004763 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1408206004764 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 1408206004765 Response regulator receiver domain; Region: Response_reg; pfam00072 1408206004766 active site 1408206004767 phosphorylation site [posttranslational modification] 1408206004768 intermolecular recognition site; other site 1408206004769 dimerization interface [polypeptide binding]; other site 1408206004770 YcbB domain; Region: YcbB; pfam08664 1408206004771 oligoendopeptidase F; Region: pepF; TIGR00181 1408206004772 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 1408206004773 active site 1408206004774 Zn binding site [ion binding]; other site 1408206004775 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 1408206004776 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1408206004777 putative substrate translocation pore; other site 1408206004778 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1408206004779 Biotin operon repressor [Transcription]; Region: BirA; COG1654 1408206004780 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1408206004781 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1408206004782 BioY family; Region: BioY; pfam02632 1408206004783 S-ribosylhomocysteinase; Provisional; Region: PRK02260 1408206004784 BCCT family transporter; Region: BCCT; pfam02028 1408206004785 maltose O-acetyltransferase; Provisional; Region: PRK10092 1408206004786 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 1408206004787 active site 1408206004788 substrate binding site [chemical binding]; other site 1408206004789 trimer interface [polypeptide binding]; other site 1408206004790 CoA binding site [chemical binding]; other site 1408206004791 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 1408206004792 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1408206004793 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1408206004794 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1408206004795 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 1408206004796 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1408206004797 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 1408206004798 putative dimer interface [polypeptide binding]; other site 1408206004799 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 1408206004800 active site 1408206004801 multimer interface [polypeptide binding]; other site 1408206004802 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1408206004803 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1408206004804 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1408206004805 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 1408206004806 Penicillinase repressor; Region: Pencillinase_R; pfam03965 1408206004807 EamA-like transporter family; Region: EamA; pfam00892 1408206004808 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1408206004809 EamA-like transporter family; Region: EamA; pfam00892 1408206004810 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1408206004811 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1408206004812 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1408206004813 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408206004814 Walker A/P-loop; other site 1408206004815 ATP binding site [chemical binding]; other site 1408206004816 Q-loop/lid; other site 1408206004817 ABC transporter signature motif; other site 1408206004818 Walker B; other site 1408206004819 D-loop; other site 1408206004820 H-loop/switch region; other site 1408206004821 ABC transporter; Region: ABC_tran_2; pfam12848 1408206004822 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1408206004823 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1408206004824 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1408206004825 Walker A/P-loop; other site 1408206004826 ATP binding site [chemical binding]; other site 1408206004827 Q-loop/lid; other site 1408206004828 ABC transporter signature motif; other site 1408206004829 Walker B; other site 1408206004830 D-loop; other site 1408206004831 H-loop/switch region; other site 1408206004832 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1408206004833 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1408206004834 FtsX-like permease family; Region: FtsX; pfam02687 1408206004835 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1408206004836 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1408206004837 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1408206004838 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1408206004839 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 1408206004840 motif II; other site 1408206004841 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1408206004842 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 1408206004843 dimer interface [polypeptide binding]; other site 1408206004844 conserved gate region; other site 1408206004845 putative PBP binding loops; other site 1408206004846 ABC-ATPase subunit interface; other site 1408206004847 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1408206004848 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 1408206004849 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 1408206004850 dimer interface [polypeptide binding]; other site 1408206004851 conserved gate region; other site 1408206004852 putative PBP binding loops; other site 1408206004853 ABC-ATPase subunit interface; other site 1408206004854 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1408206004855 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1408206004856 Walker A/P-loop; other site 1408206004857 ATP binding site [chemical binding]; other site 1408206004858 Q-loop/lid; other site 1408206004859 ABC transporter signature motif; other site 1408206004860 Walker B; other site 1408206004861 D-loop; other site 1408206004862 H-loop/switch region; other site 1408206004863 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 1408206004864 peptidase T; Region: peptidase-T; TIGR01882 1408206004865 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1408206004866 metal binding site [ion binding]; metal-binding site 1408206004867 dimer interface [polypeptide binding]; other site 1408206004868 putative oxidoreductase; Provisional; Region: PRK10206 1408206004869 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1408206004870 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1408206004871 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1408206004872 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1408206004873 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1408206004874 Walker A/P-loop; other site 1408206004875 ATP binding site [chemical binding]; other site 1408206004876 Q-loop/lid; other site 1408206004877 ABC transporter signature motif; other site 1408206004878 Walker B; other site 1408206004879 D-loop; other site 1408206004880 H-loop/switch region; other site 1408206004881 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1408206004882 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 1408206004883 putative Zn2+ binding site [ion binding]; other site 1408206004884 putative DNA binding site [nucleotide binding]; other site 1408206004885 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 1408206004886 dihydroxyacetone kinase, phosphoprotein-dependent, L subunit; Region: dha_L_ycgS; TIGR02365 1408206004887 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 1408206004888 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1408206004889 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1408206004890 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1408206004891 synthetase active site [active] 1408206004892 NTP binding site [chemical binding]; other site 1408206004893 metal binding site [ion binding]; metal-binding site 1408206004894 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 1408206004895 Asp23 family; Region: Asp23; pfam03780 1408206004896 Asp23 family; Region: Asp23; pfam03780 1408206004897 Predicted membrane protein [Function unknown]; Region: COG2261 1408206004898 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 1408206004899 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1408206004900 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 1408206004901 active site 1408206004902 dimer interface [polypeptide binding]; other site 1408206004903 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 1408206004904 active site 1408206004905 catalytic residues [active] 1408206004906 metal binding site [ion binding]; metal-binding site 1408206004907 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1408206004908 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1408206004909 Coenzyme A binding pocket [chemical binding]; other site 1408206004910 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1408206004911 MarR family; Region: MarR; pfam01047 1408206004912 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1408206004913 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1408206004914 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1408206004915 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1408206004916 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1408206004917 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 1408206004918 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 1408206004919 Walker A/P-loop; other site 1408206004920 ATP binding site [chemical binding]; other site 1408206004921 Q-loop/lid; other site 1408206004922 ABC transporter signature motif; other site 1408206004923 Walker B; other site 1408206004924 D-loop; other site 1408206004925 H-loop/switch region; other site 1408206004926 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1408206004927 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1408206004928 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1408206004929 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 1408206004930 dimerization interface [polypeptide binding]; other site 1408206004931 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 1408206004932 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1408206004933 Coenzyme A binding pocket [chemical binding]; other site 1408206004934 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1408206004935 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 1408206004936 putative substrate translocation pore; other site 1408206004937 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 1408206004938 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 1408206004939 Ligand Binding Site [chemical binding]; other site 1408206004940 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 1408206004941 amphipathic channel; other site 1408206004942 Asn-Pro-Ala signature motifs; other site 1408206004943 Protein of unknown function DUF111; Region: DUF111; pfam01969 1408206004944 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 1408206004945 AIR carboxylase; Region: AIRC; smart01001 1408206004946 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 1408206004947 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1408206004948 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 1408206004949 ligand binding site [chemical binding]; other site 1408206004950 flexible hinge region; other site 1408206004951 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 1408206004952 non-specific DNA interactions [nucleotide binding]; other site 1408206004953 DNA binding site [nucleotide binding] 1408206004954 sequence specific DNA binding site [nucleotide binding]; other site 1408206004955 putative cAMP binding site [chemical binding]; other site 1408206004956 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 1408206004957 Sugar transport protein; Region: Sugar_transport; pfam06800 1408206004958 D-ribose pyranase; Provisional; Region: PRK11797 1408206004959 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1408206004960 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 1408206004961 substrate binding site [chemical binding]; other site 1408206004962 dimer interface [polypeptide binding]; other site 1408206004963 ATP binding site [chemical binding]; other site 1408206004964 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1408206004965 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1408206004966 DNA binding site [nucleotide binding] 1408206004967 domain linker motif; other site 1408206004968 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 1408206004969 dimerization interface [polypeptide binding]; other site 1408206004970 ligand binding site [chemical binding]; other site 1408206004971 manganese transport protein MntH; Reviewed; Region: PRK00701 1408206004972 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1408206004973 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1408206004974 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1408206004975 Ligand binding site; other site 1408206004976 Putative Catalytic site; other site 1408206004977 DXD motif; other site 1408206004978 Predicted membrane protein [Function unknown]; Region: COG2246 1408206004979 GtrA-like protein; Region: GtrA; pfam04138 1408206004980 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 1408206004981 catalytic core [active] 1408206004982 AP2 domain; Region: AP2; pfam00847 1408206004983 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1408206004984 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 1408206004985 catalytic residues [active] 1408206004986 catalytic nucleophile [active] 1408206004987 Presynaptic Site I dimer interface [polypeptide binding]; other site 1408206004988 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1408206004989 Synaptic Flat tetramer interface [polypeptide binding]; other site 1408206004990 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 1408206004991 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1408206004992 NAD(P) binding site [chemical binding]; other site 1408206004993 putative active site [active] 1408206004994 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 1408206004995 B3/4 domain; Region: B3_4; pfam03483 1408206004996 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 1408206004997 catalytic core [active] 1408206004998 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 1408206004999 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1408206005000 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 1408206005001 S-adenosylmethionine binding site [chemical binding]; other site 1408206005002 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 1408206005003 AzlC protein; Region: AzlC; pfam03591 1408206005004 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1408206005005 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1408206005006 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1408206005007 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1408206005008 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 1408206005009 dimer interface [polypeptide binding]; other site 1408206005010 phosphorylation site [posttranslational modification] 1408206005011 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 1408206005012 ATP binding site [chemical binding]; other site 1408206005013 Mg2+ binding site [ion binding]; other site 1408206005014 G-X-G motif; other site 1408206005015 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1408206005016 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 1408206005017 active site 1408206005018 phosphorylation site [posttranslational modification] 1408206005019 intermolecular recognition site; other site 1408206005020 dimerization interface [polypeptide binding]; other site 1408206005021 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 1408206005022 DNA binding site [nucleotide binding] 1408206005023 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1408206005024 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 1408206005025 DNA binding site [nucleotide binding] 1408206005026 active site 1408206005027 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK06843 1408206005028 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 1408206005029 active site 1408206005030 Protein of unknown function (DUF1129); Region: DUF1129; pfam06570 1408206005031 GTP-binding protein YchF; Reviewed; Region: PRK09601 1408206005032 YchF GTPase; Region: YchF; cd01900 1408206005033 G1 box; other site 1408206005034 GTP/Mg2+ binding site [chemical binding]; other site 1408206005035 Switch I region; other site 1408206005036 G2 box; other site 1408206005037 Switch II region; other site 1408206005038 G3 box; other site 1408206005039 G4 box; other site 1408206005040 G5 box; other site 1408206005041 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 1408206005042 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 1408206005043 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1408206005044 ParB-like nuclease domain; Region: ParB; smart00470 1408206005045 KorB domain; Region: KorB; pfam08535 1408206005046 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1408206005047 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1408206005048 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1408206005049 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1408206005050 Coenzyme A binding pocket [chemical binding]; other site 1408206005051 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 1408206005052 active site 1408206005053 tetramer interface [polypeptide binding]; other site 1408206005054 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1408206005055 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1408206005056 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1408206005057 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1408206005058 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1408206005059 DEAD_2; Region: DEAD_2; pfam06733 1408206005060 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1408206005061 NlpC/P60 family; Region: NLPC_P60; pfam00877 1408206005062 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1408206005063 Protein of unknown function (DUF972); Region: DUF972; pfam06156 1408206005064 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1408206005065 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 1408206005066 putative substrate translocation pore; other site 1408206005067 TRAM domain; Region: TRAM; pfam01938 1408206005068 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1408206005069 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1408206005070 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1408206005071 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 1408206005072 active site 1408206005073 phosphorylation site [posttranslational modification] 1408206005074 intermolecular recognition site; other site 1408206005075 dimerization interface [polypeptide binding]; other site 1408206005076 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 1408206005077 DNA binding residues [nucleotide binding] 1408206005078 dimerization interface [polypeptide binding]; other site 1408206005079 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1408206005080 Histidine kinase; Region: HisKA_3; pfam07730 1408206005081 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 1408206005082 ATP binding site [chemical binding]; other site 1408206005083 Mg2+ binding site [ion binding]; other site 1408206005084 G-X-G motif; other site 1408206005085 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1408206005086 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1408206005087 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1408206005088 Walker A/P-loop; other site 1408206005089 ATP binding site [chemical binding]; other site 1408206005090 Q-loop/lid; other site 1408206005091 ABC transporter signature motif; other site 1408206005092 Walker B; other site 1408206005093 D-loop; other site 1408206005094 H-loop/switch region; other site 1408206005095 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1408206005096 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1408206005097 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1408206005098 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 1408206005099 catalytic triad [active] 1408206005100 catalytic triad [active] 1408206005101 oxyanion hole [active] 1408206005102 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1408206005103 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1408206005104 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1408206005105 Walker A/P-loop; other site 1408206005106 ATP binding site [chemical binding]; other site 1408206005107 Q-loop/lid; other site 1408206005108 ABC transporter signature motif; other site 1408206005109 Walker B; other site 1408206005110 D-loop; other site 1408206005111 H-loop/switch region; other site 1408206005112 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 1408206005113 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 1408206005114 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1408206005115 catalytic residue [active] 1408206005116 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1408206005117 endonuclease III; Region: ENDO3c; smart00478 1408206005118 minor groove reading motif; other site 1408206005119 helix-hairpin-helix signature motif; other site 1408206005120 substrate binding pocket [chemical binding]; other site 1408206005121 active site 1408206005122 Peptidase family C69; Region: Peptidase_C69; pfam03577 1408206005123 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1408206005124 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 1408206005125 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1408206005126 MarR family; Region: MarR_2; pfam12802 1408206005127 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1408206005128 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 1408206005129 active site 1408206005130 dimer interface [polypeptide binding]; other site 1408206005131 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 1408206005132 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 1408206005133 dimer interface [polypeptide binding]; other site 1408206005134 active site 1408206005135 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 1408206005136 putative active site [active] 1408206005137 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1408206005138 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1408206005139 DNA-binding site [nucleotide binding]; DNA binding site 1408206005140 UTRA domain; Region: UTRA; pfam07702 1408206005141 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 1408206005142 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 1408206005143 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 1408206005144 active site 1408206005145 phosphorylation site [posttranslational modification] 1408206005146 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 1408206005147 active pocket/dimerization site; other site 1408206005148 active site 1408206005149 phosphorylation site [posttranslational modification] 1408206005150 Domain of unknown function (DUF303); Region: DUF303; pfam03629 1408206005151 QueT transporter; Region: QueT; pfam06177 1408206005152 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1408206005153 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1408206005154 putative NAD(P) binding site [chemical binding]; other site 1408206005155 dimer interface [polypeptide binding]; other site 1408206005156 Predicted transcriptional regulator [Transcription]; Region: COG1959 1408206005157 Transcriptional regulator; Region: Rrf2; pfam02082 1408206005158 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1408206005159 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 1408206005160 NADP binding site [chemical binding]; other site 1408206005161 Protein of unknown function (DUF3923); Region: DUF3923; pfam13061 1408206005162 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1408206005163 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1408206005164 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1408206005165 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1408206005166 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1408206005167 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1408206005168 E3 interaction surface; other site 1408206005169 lipoyl attachment site [posttranslational modification]; other site 1408206005170 e3 binding domain; Region: E3_binding; pfam02817 1408206005171 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1408206005172 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1408206005173 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 1408206005174 alpha subunit interface [polypeptide binding]; other site 1408206005175 TPP binding site [chemical binding]; other site 1408206005176 heterodimer interface [polypeptide binding]; other site 1408206005177 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1408206005178 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 1408206005179 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 1408206005180 TPP-binding site [chemical binding]; other site 1408206005181 tetramer interface [polypeptide binding]; other site 1408206005182 heterodimer interface [polypeptide binding]; other site 1408206005183 phosphorylation loop region [posttranslational modification] 1408206005184 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 1408206005185 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1408206005186 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 1408206005187 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1408206005188 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1408206005189 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1408206005190 beta-galactosidase; Region: BGL; TIGR03356 1408206005191 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1408206005192 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1408206005193 DNA-binding site [nucleotide binding]; DNA binding site 1408206005194 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1408206005195 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 1408206005196 putative FMN binding site [chemical binding]; other site 1408206005197 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1408206005198 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 1408206005199 non-specific DNA binding site [nucleotide binding]; other site 1408206005200 salt bridge; other site 1408206005201 sequence-specific DNA binding site [nucleotide binding]; other site 1408206005202 Predicted membrane protein [Function unknown]; Region: COG1511 1408206005203 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1408206005204 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 1408206005205 Predicted membrane protein [Function unknown]; Region: COG1511 1408206005206 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 1408206005207 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 1408206005208 dimerization interface [polypeptide binding]; other site 1408206005209 putative DNA binding site [nucleotide binding]; other site 1408206005210 putative Zn2+ binding site [ion binding]; other site 1408206005211 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 1408206005212 EDD domain protein, DegV family; Region: DegV; TIGR00762 1408206005213 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1408206005214 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1408206005215 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 1408206005216 S-adenosylmethionine binding site [chemical binding]; other site 1408206005217 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 1408206005218 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 1408206005219 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 1408206005220 dimanganese center [ion binding]; other site 1408206005221 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 1408206005222 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1408206005223 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1408206005224 metal binding site [ion binding]; metal-binding site 1408206005225 active site 1408206005226 I-site; other site 1408206005227 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 1408206005228 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1408206005229 putative substrate translocation pore; other site 1408206005230 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1408206005231 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 1408206005232 protein binding site [polypeptide binding]; other site 1408206005233 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1408206005234 YycH protein; Region: YycI; pfam09648 1408206005235 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 1408206005236 YycH protein; Region: YycH; pfam07435 1408206005237 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 1408206005238 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 1408206005239 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 1408206005240 dimerization interface [polypeptide binding]; other site 1408206005241 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 1408206005242 putative active site [active] 1408206005243 heme pocket [chemical binding]; other site 1408206005244 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 1408206005245 dimer interface [polypeptide binding]; other site 1408206005246 phosphorylation site [posttranslational modification] 1408206005247 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 1408206005248 ATP binding site [chemical binding]; other site 1408206005249 Mg2+ binding site [ion binding]; other site 1408206005250 G-X-G motif; other site 1408206005251 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1408206005252 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 1408206005253 active site 1408206005254 phosphorylation site [posttranslational modification] 1408206005255 intermolecular recognition site; other site 1408206005256 dimerization interface [polypeptide binding]; other site 1408206005257 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 1408206005258 DNA binding site [nucleotide binding] 1408206005259 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1408206005260 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1408206005261 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 1408206005262 dimerization interface [polypeptide binding]; other site 1408206005263 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1408206005264 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1408206005265 NAD(P) binding site [chemical binding]; other site 1408206005266 active site 1408206005267 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 1408206005268 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1408206005269 putative substrate translocation pore; other site 1408206005270 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 1408206005271 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1408206005272 active site 1408206005273 motif I; other site 1408206005274 motif II; other site 1408206005275 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1408206005276 HPr interaction site; other site 1408206005277 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1408206005278 active site 1408206005279 phosphorylation site [posttranslational modification] 1408206005280 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 1408206005281 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 1408206005282 active site turn [active] 1408206005283 phosphorylation site [posttranslational modification] 1408206005284 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1408206005285 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1408206005286 DNA-binding site [nucleotide binding]; DNA binding site 1408206005287 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 1408206005288 UTRA domain; Region: UTRA; pfam07702 1408206005289 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1408206005290 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 1408206005291 Ca binding site [ion binding]; other site 1408206005292 active site 1408206005293 catalytic site [active] 1408206005294 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1408206005295 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1408206005296 DNA binding site [nucleotide binding] 1408206005297 domain linker motif; other site 1408206005298 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1408206005299 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1408206005300 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 1408206005301 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 1408206005302 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1408206005303 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1408206005304 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1408206005305 Walker A/P-loop; other site 1408206005306 ATP binding site [chemical binding]; other site 1408206005307 Q-loop/lid; other site 1408206005308 ABC transporter signature motif; other site 1408206005309 Walker B; other site 1408206005310 D-loop; other site 1408206005311 H-loop/switch region; other site 1408206005312 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1408206005313 FtsX-like permease family; Region: FtsX; pfam02687 1408206005314 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1408206005315 MarR family; Region: MarR_2; pfam12802 1408206005316 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 1408206005317 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1408206005318 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 1408206005319 active site turn [active] 1408206005320 phosphorylation site [posttranslational modification] 1408206005321 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1408206005322 HPr interaction site; other site 1408206005323 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1408206005324 active site 1408206005325 phosphorylation site [posttranslational modification] 1408206005326 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 1408206005327 homopentamer interface [polypeptide binding]; other site 1408206005328 active site 1408206005329 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1408206005330 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1408206005331 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 1408206005332 dimerization interface [polypeptide binding]; other site 1408206005333 active site 1408206005334 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1408206005335 Lumazine binding domain; Region: Lum_binding; pfam00677 1408206005336 Lumazine binding domain; Region: Lum_binding; pfam00677 1408206005337 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1408206005338 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 1408206005339 catalytic motif [active] 1408206005340 Zn binding site [ion binding]; other site 1408206005341 RibD C-terminal domain; Region: RibD_C; cl17279 1408206005342 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1408206005343 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 1408206005344 NAD(P) binding site [chemical binding]; other site 1408206005345 catalytic residues [active] 1408206005346 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1408206005347 propionate/acetate kinase; Provisional; Region: PRK12379 1408206005348 Predicted transcriptional regulators [Transcription]; Region: COG1695 1408206005349 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1408206005350 Predicted membrane protein [Function unknown]; Region: COG4709 1408206005351 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 1408206005352 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1408206005353 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1408206005354 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 1408206005355 putative dimer interface [polypeptide binding]; other site 1408206005356 catalytic triad [active] 1408206005357 Protein of unknown function (DUF454); Region: DUF454; cl01063 1408206005358 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1408206005359 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 1408206005360 salt bridge; other site 1408206005361 non-specific DNA binding site [nucleotide binding]; other site 1408206005362 sequence-specific DNA binding site [nucleotide binding]; other site 1408206005363 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1408206005364 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 1408206005365 Part of AAA domain; Region: AAA_19; pfam13245 1408206005366 Family description; Region: UvrD_C_2; pfam13538 1408206005367 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1408206005368 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 1408206005369 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1408206005370 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1408206005371 NAD(P) binding site [chemical binding]; other site 1408206005372 active site 1408206005373 xanthine permease; Region: pbuX; TIGR03173 1408206005374 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1408206005375 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 1408206005376 active site 1408206005377 catalytic triad [active] 1408206005378 oxyanion hole [active] 1408206005379 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1408206005380 T-box leader; Derived by automated computational analysis using gene prediction method: cmsearch. 1408206005381 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 1408206005382 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1408206005383 putative active site [active] 1408206005384 catalytic site [active] 1408206005385 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 1408206005386 putative active site [active] 1408206005387 catalytic site [active] 1408206005388 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 1408206005389 nucleotide binding site/active site [active] 1408206005390 HIT family signature motif; other site 1408206005391 catalytic residue [active] 1408206005392 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1408206005393 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 1408206005394 Catalytic site [active] 1408206005395 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 1408206005396 hypothetical protein; Validated; Region: PRK02101 1408206005397 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1408206005398 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 1408206005399 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1408206005400 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1408206005401 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1408206005402 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1408206005403 G1 box; other site 1408206005404 GTP/Mg2+ binding site [chemical binding]; other site 1408206005405 Switch I region; other site 1408206005406 G2 box; other site 1408206005407 Switch II region; other site 1408206005408 G3 box; other site 1408206005409 G4 box; other site 1408206005410 G5 box; other site 1408206005411 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1408206005412 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 1408206005413 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 1408206005414 ribonuclease P; Reviewed; Region: rnpA; PRK00499 1408206005415 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399