-- dump date 20140619_123240 -- class Genbank::misc_feature -- table misc_feature_note -- id note 321956000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 321956000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 321956000003 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 321956000004 Walker A motif; other site 321956000005 ATP binding site [chemical binding]; other site 321956000006 Walker B motif; other site 321956000007 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 321956000008 arginine finger; other site 321956000009 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 321956000010 DnaA box-binding interface [nucleotide binding]; other site 321956000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 321956000012 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 321956000013 putative DNA binding surface [nucleotide binding]; other site 321956000014 dimer interface [polypeptide binding]; other site 321956000015 beta-clamp/clamp loader binding surface; other site 321956000016 beta-clamp/translesion DNA polymerase binding surface; other site 321956000017 S4 domain; Region: S4_2; pfam13275 321956000018 recombination protein F; Reviewed; Region: recF; PRK00064 321956000019 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 321956000020 Walker A/P-loop; other site 321956000021 ATP binding site [chemical binding]; other site 321956000022 Q-loop/lid; other site 321956000023 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 321956000024 ABC transporter signature motif; other site 321956000025 Walker B; other site 321956000026 D-loop; other site 321956000027 H-loop/switch region; other site 321956000028 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 321956000029 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 321956000030 Mg2+ binding site [ion binding]; other site 321956000031 G-X-G motif; other site 321956000032 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 321956000033 anchoring element; other site 321956000034 dimer interface [polypeptide binding]; other site 321956000035 ATP binding site [chemical binding]; other site 321956000036 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 321956000037 active site 321956000038 putative metal-binding site [ion binding]; other site 321956000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 321956000040 DNA gyrase subunit A; Validated; Region: PRK05560 321956000041 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 321956000042 CAP-like domain; other site 321956000043 active site 321956000044 primary dimer interface [polypeptide binding]; other site 321956000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 321956000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 321956000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 321956000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 321956000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 321956000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 321956000051 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 321956000052 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 321956000053 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 321956000054 dimer interface [polypeptide binding]; other site 321956000055 ssDNA binding site [nucleotide binding]; other site 321956000056 tetramer (dimer of dimers) interface [polypeptide binding]; other site 321956000057 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 321956000058 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 321956000059 DHH family; Region: DHH; pfam01368 321956000060 DHHA1 domain; Region: DHHA1; pfam02272 321956000061 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 321956000062 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 321956000063 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 321956000064 replicative DNA helicase; Region: DnaB; TIGR00665 321956000065 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 321956000066 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 321956000067 Walker A motif; other site 321956000068 ATP binding site [chemical binding]; other site 321956000069 Walker B motif; other site 321956000070 DNA binding loops [nucleotide binding] 321956000071 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 321956000072 nucleophilic elbow; other site 321956000073 catalytic triad; other site 321956000074 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 321956000075 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 321956000076 Walker A/P-loop; other site 321956000077 ATP binding site [chemical binding]; other site 321956000078 Q-loop/lid; other site 321956000079 ABC transporter signature motif; other site 321956000080 Walker B; other site 321956000081 D-loop; other site 321956000082 H-loop/switch region; other site 321956000083 FtsX-like permease family; Region: FtsX; pfam02687 321956000084 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 321956000085 MgtC family; Region: MgtC; pfam02308 321956000086 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 321956000087 non-specific DNA binding site [nucleotide binding]; other site 321956000088 salt bridge; other site 321956000089 sequence-specific DNA binding site [nucleotide binding]; other site 321956000090 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 321956000091 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 321956000092 active site 321956000093 phosphorylation site [posttranslational modification] 321956000094 intermolecular recognition site; other site 321956000095 dimerization interface [polypeptide binding]; other site 321956000096 LytTr DNA-binding domain; Region: LytTR; pfam04397 321956000097 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 321956000098 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 321956000099 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 321956000100 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 321956000101 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 321956000102 Walker A/P-loop; other site 321956000103 ATP binding site [chemical binding]; other site 321956000104 Q-loop/lid; other site 321956000105 ABC transporter signature motif; other site 321956000106 Walker B; other site 321956000107 D-loop; other site 321956000108 H-loop/switch region; other site 321956000109 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 321956000110 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 321956000111 active site 321956000112 ATP binding site [chemical binding]; other site 321956000113 substrate binding site [chemical binding]; other site 321956000114 activation loop (A-loop); other site 321956000115 Lanthionine synthetase C-like domain associated with serine threonine kinases. Some members of this subgroup lack the zinc binding site and the active site residues, and therefore are most likely inactive. The function of this domain is unknown; Region: LanC_SerThrkinase; cd04791 321956000116 active site 321956000117 zinc binding site [ion binding]; other site 321956000118 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 321956000119 Cpl-1 lysin (also known as Cpl-9 lysozyme / muramidase) is a bacterial cell wall endolysin encoded by the pneumococcal bacteriophage Cp-1, which cleaves the glycosidic N-acetylmuramoyl-(beta1,4)-N-acetylglucosamine bonds of the pneumococcal glycan chain; Region: GH25_Cpl1-like; cd06415 321956000120 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 321956000121 active site 321956000122 Bacterial surface layer protein; Region: SLAP; pfam03217 321956000123 Bacterial surface layer protein; Region: SLAP; pfam03217 321956000124 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 321956000125 substrate binding site [chemical binding]; other site 321956000126 ATP binding site [chemical binding]; other site 321956000127 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 321956000128 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 321956000129 PLD-like domain; Region: PLDc_2; pfam13091 321956000130 putative homodimer interface [polypeptide binding]; other site 321956000131 putative active site [active] 321956000132 catalytic site [active] 321956000133 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 321956000134 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 321956000135 ATP binding site [chemical binding]; other site 321956000136 putative Mg++ binding site [ion binding]; other site 321956000137 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 321956000138 nucleotide binding region [chemical binding]; other site 321956000139 ATP-binding site [chemical binding]; other site 321956000140 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 321956000141 Protein of unknown function (DUF975); Region: DUF975; cl10504 321956000142 YcxB-like protein; Region: YcxB; pfam14317 321956000143 Transcriptional regulator; Region: Rrf2; pfam02082 321956000144 Rrf2 family protein; Region: rrf2_super; TIGR00738 321956000145 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 321956000146 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 321956000147 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 321956000148 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 321956000149 active site 321956000150 4-oxalocrotonate tautomerase; Provisional; Region: PRK02220 321956000151 active site 1 [active] 321956000152 dimer interface [polypeptide binding]; other site 321956000153 hexamer interface [polypeptide binding]; other site 321956000154 active site 2 [active] 321956000155 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 321956000156 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 321956000157 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 321956000158 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 321956000159 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; cl17257 321956000160 DNA binding residues [nucleotide binding] 321956000161 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 321956000162 amphipathic channel; other site 321956000163 Asn-Pro-Ala signature motifs; other site 321956000164 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 321956000165 active site 321956000166 catalytic site [active] 321956000167 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 321956000168 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 321956000169 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 321956000170 Ligand binding site; other site 321956000171 Putative Catalytic site; other site 321956000172 DXD motif; other site 321956000173 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 321956000174 EDD domain protein, DegV family; Region: DegV; TIGR00762 321956000175 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 321956000176 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 321956000177 Isoamyl-acetate hydrolyzing esterase-like proteins. SGNH_hydrolase subfamily similar to the Saccharomyces cerevisiae IAH1. IAH1 may be the major esterase that hydrolyses isoamyl acetate in sake mash. The SGNH-family of hydrolases is a diverse family of...; Region: Isoamyl_acetate_hydrolase_like; cd01838 321956000178 catalytic triad [active] 321956000179 oxyanion hole [active] 321956000180 active site 321956000181 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 321956000182 catalytic core [active] 321956000183 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 321956000184 RRXRR protein; Region: RRXRR; pfam14239 321956000185 BioY family; Region: BioY; pfam02632 321956000186 similar to hypothetical protein 321956000187 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 321956000188 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 321956000189 motif II; other site 321956000190 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 321956000191 active site 321956000192 putative catalytic site [active] 321956000193 DNA binding site [nucleotide binding] 321956000194 putative phosphate binding site [ion binding]; other site 321956000195 metal binding site A [ion binding]; metal-binding site 321956000196 AP binding site [nucleotide binding]; other site 321956000197 metal binding site B [ion binding]; metal-binding site 321956000198 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 321956000199 tetramer (dimer of dimers) interface [polypeptide binding]; other site 321956000200 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 321956000201 NAD binding site [chemical binding]; other site 321956000202 dimer interface [polypeptide binding]; other site 321956000203 substrate binding site [chemical binding]; other site 321956000204 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 321956000205 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 321956000206 active site 321956000207 catalytic tetrad [active] 321956000208 ribonucleoside-triphosphate reductase, adenosylcobalamin-dependent; Region: RTPR; TIGR02505 321956000209 Class II ribonucleotide reductase, monomeric form; Region: RNR_II_monomer; cd01676 321956000210 putative active site [active] 321956000211 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 321956000212 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 321956000213 Integrase core domain; Region: rve; pfam00665 321956000214 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 321956000215 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 321956000216 homodimer interface [polypeptide binding]; other site 321956000217 ligand binding site [chemical binding]; other site 321956000218 NAD binding site [chemical binding]; other site 321956000219 catalytic site [active] 321956000220 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 321956000221 active site 321956000222 catalytic residues [active] 321956000223 metal binding site [ion binding]; metal-binding site 321956000224 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 321956000225 S-ribosylhomocysteinase; Provisional; Region: PRK02260 321956000226 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 321956000227 proposed active site lysine [active] 321956000228 conserved cys residue [active] 321956000229 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 321956000230 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 321956000231 Walker A/P-loop; other site 321956000232 ATP binding site [chemical binding]; other site 321956000233 ABC transporter; Region: ABC_tran; pfam00005 321956000234 Q-loop/lid; other site 321956000235 ABC transporter signature motif; other site 321956000236 Walker B; other site 321956000237 D-loop; other site 321956000238 H-loop/switch region; other site 321956000239 Transcriptional regulator [Transcription]; Region: LysR; COG0583 321956000240 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 321956000241 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 321956000242 dimerization interface [polypeptide binding]; other site 321956000243 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 321956000244 substrate binding site [chemical binding]; other site 321956000245 THF binding site; other site 321956000246 zinc-binding site [ion binding]; other site 321956000247 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 321956000248 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 321956000249 nucleotide binding site [chemical binding]; other site 321956000250 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 321956000251 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 321956000252 tetramer (dimer of dimers) interface [polypeptide binding]; other site 321956000253 NAD binding site [chemical binding]; other site 321956000254 dimer interface [polypeptide binding]; other site 321956000255 substrate binding site [chemical binding]; other site 321956000256 benzoate transport; Region: 2A0115; TIGR00895 321956000257 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 321956000258 putative substrate translocation pore; other site 321956000259 Predicted membrane protein [Function unknown]; Region: COG2364 321956000260 Transcriptional regulator [Transcription]; Region: LysR; COG0583 321956000261 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 321956000262 The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold; Region: PBP2_GltC_like; cd08434 321956000263 putative dimerization interface [polypeptide binding]; other site 321956000264 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 321956000265 FAD binding domain; Region: FAD_binding_2; pfam00890 321956000266 L-aspartate oxidase; Provisional; Region: PRK06175 321956000267 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 321956000268 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 321956000269 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 321956000270 putative acyl-acceptor binding pocket; other site 321956000271 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 321956000272 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 321956000273 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 321956000274 active site 321956000275 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 321956000276 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 321956000277 putative acyl-acceptor binding pocket; other site 321956000278 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 321956000279 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 321956000280 active site 321956000281 phosphorylation site [posttranslational modification] 321956000282 intermolecular recognition site; other site 321956000283 dimerization interface [polypeptide binding]; other site 321956000284 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 321956000285 DNA binding site [nucleotide binding] 321956000286 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 321956000287 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 321956000288 dimerization interface [polypeptide binding]; other site 321956000289 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 321956000290 putative active site [active] 321956000291 heme pocket [chemical binding]; other site 321956000292 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 321956000293 dimer interface [polypeptide binding]; other site 321956000294 phosphorylation site [posttranslational modification] 321956000295 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 321956000296 ATP binding site [chemical binding]; other site 321956000297 Mg2+ binding site [ion binding]; other site 321956000298 G-X-G motif; other site 321956000299 YycH protein; Region: YycH; pfam07435 321956000300 YycH protein; Region: YycI; pfam09648 321956000301 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 321956000302 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 321956000303 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 321956000304 protein binding site [polypeptide binding]; other site 321956000305 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 321956000306 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 321956000307 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 321956000308 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 321956000309 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 321956000310 Walker A/P-loop; other site 321956000311 ATP binding site [chemical binding]; other site 321956000312 Q-loop/lid; other site 321956000313 ABC transporter signature motif; other site 321956000314 Walker B; other site 321956000315 D-loop; other site 321956000316 H-loop/switch region; other site 321956000317 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 321956000318 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 321956000319 Walker A/P-loop; other site 321956000320 ATP binding site [chemical binding]; other site 321956000321 Q-loop/lid; other site 321956000322 ABC transporter signature motif; other site 321956000323 Walker B; other site 321956000324 D-loop; other site 321956000325 H-loop/switch region; other site 321956000326 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 321956000327 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 321956000328 putative substrate translocation pore; other site 321956000329 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 321956000330 Helix-turn-helix domain; Region: HTH_18; pfam12833 321956000331 ATP-binding cassette domain of an uncharacterized transporter similar in sequence to NatA; Region: ABC_NatA_like; cd03267 321956000332 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 321956000333 Walker A/P-loop; other site 321956000334 ATP binding site [chemical binding]; other site 321956000335 Q-loop/lid; other site 321956000336 ABC transporter signature motif; other site 321956000337 Walker B; other site 321956000338 D-loop; other site 321956000339 H-loop/switch region; other site 321956000340 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 321956000341 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 321956000342 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 321956000343 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 321956000344 YcaO-like family; Region: YcaO; pfam02624 321956000345 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 321956000346 non-specific DNA binding site [nucleotide binding]; other site 321956000347 salt bridge; other site 321956000348 sequence-specific DNA binding site [nucleotide binding]; other site 321956000349 heat shock protein HtpX; Provisional; Region: PRK04897 321956000350 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 321956000351 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 321956000352 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 321956000353 transmembrane helices; other site 321956000354 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 321956000355 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 321956000356 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 321956000357 NlpC/P60 family; Region: NLPC_P60; pfam00877 321956000358 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 321956000359 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 321956000360 Walker A/P-loop; other site 321956000361 ATP binding site [chemical binding]; other site 321956000362 Q-loop/lid; other site 321956000363 ABC transporter signature motif; other site 321956000364 Walker B; other site 321956000365 D-loop; other site 321956000366 H-loop/switch region; other site 321956000367 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 321956000368 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 321956000369 substrate binding pocket [chemical binding]; other site 321956000370 membrane-bound complex binding site; other site 321956000371 hinge residues; other site 321956000372 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 321956000373 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 321956000374 dimer interface [polypeptide binding]; other site 321956000375 conserved gate region; other site 321956000376 putative PBP binding loops; other site 321956000377 ABC-ATPase subunit interface; other site 321956000378 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 321956000379 active site 321956000380 DNA binding site [nucleotide binding] 321956000381 Protein of unknown function, DUF488; Region: DUF488; cl01246 321956000382 NAD-dependent deacetylase; Provisional; Region: PRK00481 321956000383 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 321956000384 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 321956000385 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 321956000386 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 321956000387 putative active site [active] 321956000388 catalytic site [active] 321956000389 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 321956000390 putative active site [active] 321956000391 catalytic site [active] 321956000392 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 321956000393 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 321956000394 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 321956000395 RNA/DNA hybrid binding site [nucleotide binding]; other site 321956000396 active site 321956000397 Predicted secreted protein [Function unknown]; Region: COG4086 321956000398 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 321956000399 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 321956000400 active site 321956000401 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 321956000402 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 321956000403 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 321956000404 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 321956000405 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 321956000406 active site 321956000407 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 321956000408 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 321956000409 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 321956000410 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 321956000411 ligand binding site [chemical binding]; other site 321956000412 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 321956000413 non-specific DNA interactions [nucleotide binding]; other site 321956000414 DNA binding site [nucleotide binding] 321956000415 sequence specific DNA binding site [nucleotide binding]; other site 321956000416 putative cAMP binding site [chemical binding]; other site 321956000417 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 321956000418 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 321956000419 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 321956000420 ATP-grasp domain; Region: ATP-grasp_4; cl17255 321956000421 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 321956000422 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 321956000423 DNA binding residues [nucleotide binding] 321956000424 YibE/F-like protein; Region: YibE_F; pfam07907 321956000425 YibE/F-like protein; Region: YibE_F; pfam07907 321956000426 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 321956000427 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 321956000428 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 321956000429 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 321956000430 dimer interface [polypeptide binding]; other site 321956000431 ABC-ATPase subunit interface; other site 321956000432 putative PBP binding loops; other site 321956000433 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 321956000434 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 321956000435 active site 321956000436 catalytic site [active] 321956000437 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 321956000438 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 321956000439 Interdomain contacts; other site 321956000440 Cytokine receptor motif; other site 321956000441 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 321956000442 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 321956000443 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 321956000444 active site 321956000445 dimer interface [polypeptide binding]; other site 321956000446 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 321956000447 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 321956000448 active site 321956000449 phosphorylation site [posttranslational modification] 321956000450 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 321956000451 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 321956000452 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 321956000453 Ligand Binding Site [chemical binding]; other site 321956000454 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 321956000455 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 321956000456 substrate binding pocket [chemical binding]; other site 321956000457 membrane-bound complex binding site; other site 321956000458 hinge residues; other site 321956000459 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 321956000460 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 321956000461 Walker A/P-loop; other site 321956000462 ATP binding site [chemical binding]; other site 321956000463 Q-loop/lid; other site 321956000464 ABC transporter signature motif; other site 321956000465 Walker B; other site 321956000466 D-loop; other site 321956000467 H-loop/switch region; other site 321956000468 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 321956000469 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 321956000470 dimer interface [polypeptide binding]; other site 321956000471 conserved gate region; other site 321956000472 ABC-ATPase subunit interface; other site 321956000473 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 321956000474 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 321956000475 dimer interface [polypeptide binding]; other site 321956000476 conserved gate region; other site 321956000477 putative PBP binding loops; other site 321956000478 ABC-ATPase subunit interface; other site 321956000479 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 321956000480 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 321956000481 peptide binding site [polypeptide binding]; other site 321956000482 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 321956000483 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 321956000484 active site 321956000485 metal binding site [ion binding]; metal-binding site 321956000486 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 321956000487 active site 321956000488 dimer interface [polypeptide binding]; other site 321956000489 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 321956000490 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 321956000491 Ligand Binding Site [chemical binding]; other site 321956000492 Molecular Tunnel; other site 321956000493 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 321956000494 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 321956000495 ATP-grasp domain; Region: ATP-grasp_4; cl17255 321956000496 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 321956000497 Class III ribonucleotide reductase; Region: RNR_III; cd01675 321956000498 effector binding site; other site 321956000499 active site 321956000500 Zn binding site [ion binding]; other site 321956000501 glycine loop; other site 321956000502 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 321956000503 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 321956000504 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 321956000505 Uncharacterized conserved protein [Function unknown]; Region: COG2461 321956000506 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 321956000507 Major Facilitator Superfamily; Region: MFS_1; pfam07690 321956000508 putative substrate translocation pore; other site 321956000509 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 321956000510 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 321956000511 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 321956000512 active site 321956000513 Zn binding site [ion binding]; other site 321956000514 K+ potassium transporter; Region: K_trans; pfam02705 321956000515 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 321956000516 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 321956000517 Bacterial surface layer protein; Region: SLAP; pfam03217 321956000518 Bacterial surface layer protein; Region: SLAP; pfam03217 321956000519 Bacterial surface layer protein; Region: SLAP; pfam03217 321956000520 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 321956000521 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 321956000522 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 321956000523 TrkA-N domain; Region: TrkA_N; pfam02254 321956000524 TrkA-C domain; Region: TrkA_C; pfam02080 321956000525 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 321956000526 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 321956000527 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 321956000528 catalytic core [active] 321956000529 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 321956000530 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 321956000531 membrane protein; Provisional; Region: PRK14411 321956000532 Sulfatase; Region: Sulfatase; cl17466 321956000533 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 321956000534 Dihydroneopterin aldolase; Region: FolB; pfam02152 321956000535 active site 321956000536 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 321956000537 catalytic center binding site [active] 321956000538 ATP binding site [chemical binding]; other site 321956000539 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 321956000540 GTP cyclohydrolase I; Provisional; Region: PLN03044 321956000541 active site 321956000542 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 321956000543 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 321956000544 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 321956000545 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 321956000546 dihydropteroate synthase; Region: DHPS; TIGR01496 321956000547 substrate binding pocket [chemical binding]; other site 321956000548 dimer interface [polypeptide binding]; other site 321956000549 inhibitor binding site; inhibition site 321956000550 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 321956000551 nudix motif; other site 321956000552 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 321956000553 dimer interface [polypeptide binding]; other site 321956000554 conserved gate region; other site 321956000555 putative PBP binding loops; other site 321956000556 ABC-ATPase subunit interface; other site 321956000557 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 321956000558 dimer interface [polypeptide binding]; other site 321956000559 conserved gate region; other site 321956000560 putative PBP binding loops; other site 321956000561 ABC-ATPase subunit interface; other site 321956000562 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 321956000563 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 321956000564 Walker A/P-loop; other site 321956000565 ATP binding site [chemical binding]; other site 321956000566 Q-loop/lid; other site 321956000567 ABC transporter signature motif; other site 321956000568 Walker B; other site 321956000569 D-loop; other site 321956000570 H-loop/switch region; other site 321956000571 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 321956000572 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 321956000573 substrate binding pocket [chemical binding]; other site 321956000574 membrane-bound complex binding site; other site 321956000575 hinge residues; other site 321956000576 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 321956000577 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 321956000578 active site 321956000579 HIGH motif; other site 321956000580 dimer interface [polypeptide binding]; other site 321956000581 KMSKS motif; other site 321956000582 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 321956000583 RNA binding surface [nucleotide binding]; other site 321956000584 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 321956000585 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 321956000586 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 321956000587 metal binding site [ion binding]; metal-binding site 321956000588 dimer interface [polypeptide binding]; other site 321956000589 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 321956000590 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 321956000591 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 321956000592 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 321956000593 peptide binding site [polypeptide binding]; other site 321956000594 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 321956000595 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 321956000596 peptide binding site [polypeptide binding]; other site 321956000597 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 321956000598 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 321956000599 dimer interface [polypeptide binding]; other site 321956000600 conserved gate region; other site 321956000601 putative PBP binding loops; other site 321956000602 ABC-ATPase subunit interface; other site 321956000603 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 321956000604 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 321956000605 dimer interface [polypeptide binding]; other site 321956000606 conserved gate region; other site 321956000607 putative PBP binding loops; other site 321956000608 ABC-ATPase subunit interface; other site 321956000609 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 321956000610 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 321956000611 Walker A/P-loop; other site 321956000612 ATP binding site [chemical binding]; other site 321956000613 Q-loop/lid; other site 321956000614 ABC transporter signature motif; other site 321956000615 Walker B; other site 321956000616 D-loop; other site 321956000617 H-loop/switch region; other site 321956000618 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 321956000619 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 321956000620 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 321956000621 Walker A/P-loop; other site 321956000622 ATP binding site [chemical binding]; other site 321956000623 Q-loop/lid; other site 321956000624 ABC transporter signature motif; other site 321956000625 Walker B; other site 321956000626 D-loop; other site 321956000627 H-loop/switch region; other site 321956000628 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 321956000629 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 321956000630 trimer interface [polypeptide binding]; other site 321956000631 active site 321956000632 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 321956000633 trimer interface [polypeptide binding]; other site 321956000634 active site 321956000635 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 321956000636 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 321956000637 putative dimer interface [polypeptide binding]; other site 321956000638 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 321956000639 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 321956000640 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 321956000641 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 321956000642 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 321956000643 active site 321956000644 DNA polymerase IV; Reviewed; Region: PRK03103 321956000645 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 321956000646 active site 321956000647 DNA binding site [nucleotide binding] 321956000648 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 321956000649 xanthine permease; Region: pbuX; TIGR03173 321956000650 Sulfate transporter family; Region: Sulfate_transp; pfam00916 321956000651 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 321956000652 active site 321956000653 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK06843 321956000654 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 321956000655 active site 321956000656 GMP synthase; Reviewed; Region: guaA; PRK00074 321956000657 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 321956000658 AMP/PPi binding site [chemical binding]; other site 321956000659 candidate oxyanion hole; other site 321956000660 catalytic triad [active] 321956000661 potential glutamine specificity residues [chemical binding]; other site 321956000662 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 321956000663 ATP Binding subdomain [chemical binding]; other site 321956000664 Ligand Binding sites [chemical binding]; other site 321956000665 Dimerization subdomain; other site 321956000666 YcfA-like protein; Region: YcfA; cl00752 321956000667 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 321956000668 HicB family; Region: HicB; pfam05534 321956000669 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 321956000670 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 321956000671 active site 321956000672 ATP binding site [chemical binding]; other site 321956000673 substrate binding site [chemical binding]; other site 321956000674 activation loop (A-loop); other site 321956000675 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 321956000676 active site 321956000677 zinc binding site [ion binding]; other site 321956000678 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 321956000679 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 321956000680 Walker A/P-loop; other site 321956000681 ATP binding site [chemical binding]; other site 321956000682 Q-loop/lid; other site 321956000683 ABC transporter signature motif; other site 321956000684 Walker B; other site 321956000685 D-loop; other site 321956000686 H-loop/switch region; other site 321956000687 Cupin domain; Region: Cupin_2; pfam07883 321956000688 Helix-turn-helix domain; Region: HTH_18; pfam12833 321956000689 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 321956000690 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 321956000691 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 321956000692 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 321956000693 substrate binding pocket [chemical binding]; other site 321956000694 membrane-bound complex binding site; other site 321956000695 hinge residues; other site 321956000696 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 321956000697 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 321956000698 Walker A/P-loop; other site 321956000699 ATP binding site [chemical binding]; other site 321956000700 Q-loop/lid; other site 321956000701 ABC transporter signature motif; other site 321956000702 Walker B; other site 321956000703 D-loop; other site 321956000704 H-loop/switch region; other site 321956000705 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 321956000706 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 321956000707 dimer interface [polypeptide binding]; other site 321956000708 conserved gate region; other site 321956000709 putative PBP binding loops; other site 321956000710 ABC-ATPase subunit interface; other site 321956000711 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 321956000712 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 321956000713 ATP-grasp domain; Region: ATP-grasp_4; cl17255 321956000714 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 321956000715 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 321956000716 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 321956000717 putative DNA binding site [nucleotide binding]; other site 321956000718 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 321956000719 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 321956000720 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cl00022 321956000721 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 321956000722 putative deacylase active site [active] 321956000723 Chorismate mutase type II; Region: CM_2; pfam01817 321956000724 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 321956000725 MarR family; Region: MarR_2; pfam12802 321956000726 MarR family; Region: MarR_2; cl17246 321956000727 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 321956000728 active site 321956000729 homodimer interface [polypeptide binding]; other site 321956000730 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 321956000731 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 321956000732 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 321956000733 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 321956000734 active site 321956000735 similar to hypothetical protein 321956000736 Isochorismatase family; Region: Isochorismatase; pfam00857 321956000737 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 321956000738 catalytic triad [active] 321956000739 conserved cis-peptide bond; other site 321956000740 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 321956000741 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 321956000742 nudix motif; other site 321956000743 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 321956000744 Enterocin A Immunity; Region: EntA_Immun; pfam08951 321956000745 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 321956000746 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 321956000747 ABC-2 type transporter; Region: ABC2_membrane; cl17235 321956000748 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 321956000749 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 321956000750 Walker A/P-loop; other site 321956000751 ATP binding site [chemical binding]; other site 321956000752 Q-loop/lid; other site 321956000753 ABC transporter signature motif; other site 321956000754 Walker B; other site 321956000755 D-loop; other site 321956000756 H-loop/switch region; other site 321956000757 Subunit A of Class III extradiol dioxygenases; Region: Extradiol_Dioxygenase_3A_like; cd07321 321956000758 dimer interface [polypeptide binding]; other site 321956000759 tetramer interface [polypeptide binding]; other site 321956000760 Catalytic domain of Protein Kinases; Region: PKc; cd00180 321956000761 active site 321956000762 ATP binding site [chemical binding]; other site 321956000763 substrate binding site [chemical binding]; other site 321956000764 activation loop (A-loop); other site 321956000765 CAAX protease self-immunity; Region: Abi; pfam02517 321956000766 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 321956000767 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 321956000768 active site 321956000769 HIGH motif; other site 321956000770 dimer interface [polypeptide binding]; other site 321956000771 KMSKS motif; other site 321956000772 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 321956000773 catalytic motif [active] 321956000774 Zn binding site [ion binding]; other site 321956000775 magnesium-transporting ATPase; Provisional; Region: PRK15122 321956000776 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 321956000777 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 321956000778 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 321956000779 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 321956000780 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 321956000781 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 321956000782 active site 321956000783 HIGH motif; other site 321956000784 KMSKS motif; other site 321956000785 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 321956000786 tRNA binding surface [nucleotide binding]; other site 321956000787 anticodon binding site; other site 321956000788 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 321956000789 dimer interface [polypeptide binding]; other site 321956000790 putative tRNA-binding site [nucleotide binding]; other site 321956000791 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 321956000792 active site 321956000793 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 321956000794 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 321956000795 putative active site [active] 321956000796 putative metal binding site [ion binding]; other site 321956000797 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 321956000798 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 321956000799 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 321956000800 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 321956000801 pur operon repressor; Provisional; Region: PRK09213 321956000802 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 321956000803 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 321956000804 active site 321956000805 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 321956000806 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 321956000807 Substrate binding site; other site 321956000808 Mg++ binding site; other site 321956000809 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 321956000810 active site 321956000811 substrate binding site [chemical binding]; other site 321956000812 CoA binding site [chemical binding]; other site 321956000813 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 321956000814 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 321956000815 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 321956000816 active site 321956000817 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 321956000818 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 321956000819 Zn2+ binding site [ion binding]; other site 321956000820 Mg2+ binding site [ion binding]; other site 321956000821 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 321956000822 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 321956000823 CTP synthetase; Validated; Region: pyrG; PRK05380 321956000824 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 321956000825 Catalytic site [active] 321956000826 active site 321956000827 UTP binding site [chemical binding]; other site 321956000828 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 321956000829 active site 321956000830 putative oxyanion hole; other site 321956000831 catalytic triad [active] 321956000832 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 321956000833 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 321956000834 hinge; other site 321956000835 active site 321956000836 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 321956000837 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 321956000838 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 321956000839 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 321956000840 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 321956000841 DEAD-like helicases superfamily; Region: DEXDc; smart00487 321956000842 ATP binding site [chemical binding]; other site 321956000843 Mg++ binding site [ion binding]; other site 321956000844 motif III; other site 321956000845 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 321956000846 nucleotide binding region [chemical binding]; other site 321956000847 ATP-binding site [chemical binding]; other site 321956000848 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 321956000849 alanine racemase; Reviewed; Region: alr; PRK00053 321956000850 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 321956000851 active site 321956000852 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 321956000853 dimer interface [polypeptide binding]; other site 321956000854 substrate binding site [chemical binding]; other site 321956000855 catalytic residues [active] 321956000856 FOG: CBS domain [General function prediction only]; Region: COG0517 321956000857 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 321956000858 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 321956000859 putative active site [active] 321956000860 catalytic residue [active] 321956000861 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 321956000862 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 321956000863 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 321956000864 ATP binding site [chemical binding]; other site 321956000865 putative Mg++ binding site [ion binding]; other site 321956000866 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 321956000867 nucleotide binding region [chemical binding]; other site 321956000868 ATP-binding site [chemical binding]; other site 321956000869 TRCF domain; Region: TRCF; pfam03461 321956000870 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 321956000871 RNA binding surface [nucleotide binding]; other site 321956000872 Septum formation initiator; Region: DivIC; pfam04977 321956000873 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 321956000874 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 321956000875 RNA binding site [nucleotide binding]; other site 321956000876 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 321956000877 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 321956000878 Ligand Binding Site [chemical binding]; other site 321956000879 TilS substrate C-terminal domain; Region: TilS_C; smart00977 321956000880 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 321956000881 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 321956000882 Walker A motif; other site 321956000883 ATP binding site [chemical binding]; other site 321956000884 Walker B motif; other site 321956000885 arginine finger; other site 321956000886 Peptidase family M41; Region: Peptidase_M41; pfam01434 321956000887 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 321956000888 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 321956000889 dimerization interface [polypeptide binding]; other site 321956000890 domain crossover interface; other site 321956000891 redox-dependent activation switch; other site 321956000892 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 321956000893 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 321956000894 peptide binding site [polypeptide binding]; other site 321956000895 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 321956000896 peptidase T; Region: peptidase-T; TIGR01882 321956000897 metal binding site [ion binding]; metal-binding site 321956000898 dimer interface [polypeptide binding]; other site 321956000899 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 321956000900 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 321956000901 FMN binding site [chemical binding]; other site 321956000902 active site 321956000903 catalytic residues [active] 321956000904 substrate binding site [chemical binding]; other site 321956000905 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 321956000906 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 321956000907 dimer interface [polypeptide binding]; other site 321956000908 putative anticodon binding site; other site 321956000909 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 321956000910 motif 1; other site 321956000911 active site 321956000912 motif 2; other site 321956000913 motif 3; other site 321956000914 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 321956000915 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 321956000916 metal binding site [ion binding]; metal-binding site 321956000917 active site 321956000918 I-site; other site 321956000919 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 321956000920 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 321956000921 Clp amino terminal domain; Region: Clp_N; pfam02861 321956000922 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 321956000923 Walker A motif; other site 321956000924 ATP binding site [chemical binding]; other site 321956000925 Walker B motif; other site 321956000926 arginine finger; other site 321956000927 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 321956000928 Walker A motif; other site 321956000929 ATP binding site [chemical binding]; other site 321956000930 Walker B motif; other site 321956000931 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 321956000932 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 321956000933 DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]; Region: RpoB; COG0085 321956000934 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 321956000935 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 321956000936 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 321956000937 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 321956000938 RPB10 interaction site [polypeptide binding]; other site 321956000939 RPB1 interaction site [polypeptide binding]; other site 321956000940 RPB11 interaction site [polypeptide binding]; other site 321956000941 RPB3 interaction site [polypeptide binding]; other site 321956000942 RPB12 interaction site [polypeptide binding]; other site 321956000943 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 321956000944 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 321956000945 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 321956000946 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 321956000947 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 321956000948 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 321956000949 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 321956000950 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 321956000951 G-loop; other site 321956000952 DNA binding site [nucleotide binding] 321956000953 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 321956000954 S17 interaction site [polypeptide binding]; other site 321956000955 S8 interaction site; other site 321956000956 16S rRNA interaction site [nucleotide binding]; other site 321956000957 streptomycin interaction site [chemical binding]; other site 321956000958 23S rRNA interaction site [nucleotide binding]; other site 321956000959 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 321956000960 30S ribosomal protein S7; Validated; Region: PRK05302 321956000961 elongation factor G; Reviewed; Region: PRK12739 321956000962 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 321956000963 G1 box; other site 321956000964 putative GEF interaction site [polypeptide binding]; other site 321956000965 GTP/Mg2+ binding site [chemical binding]; other site 321956000966 Switch I region; other site 321956000967 G2 box; other site 321956000968 G3 box; other site 321956000969 Switch II region; other site 321956000970 G4 box; other site 321956000971 G5 box; other site 321956000972 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 321956000973 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 321956000974 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 321956000975 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 321956000976 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 321956000977 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 321956000978 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 321956000979 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 321956000980 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 321956000981 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 321956000982 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 321956000983 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 321956000984 putative translocon binding site; other site 321956000985 protein-rRNA interface [nucleotide binding]; other site 321956000986 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 321956000987 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 321956000988 G-X-X-G motif; other site 321956000989 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 321956000990 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 321956000991 23S rRNA interface [nucleotide binding]; other site 321956000992 5S rRNA interface [nucleotide binding]; other site 321956000993 putative antibiotic binding site [chemical binding]; other site 321956000994 L25 interface [polypeptide binding]; other site 321956000995 L27 interface [polypeptide binding]; other site 321956000996 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 321956000997 23S rRNA interface [nucleotide binding]; other site 321956000998 putative translocon interaction site; other site 321956000999 signal recognition particle (SRP54) interaction site; other site 321956001000 L23 interface [polypeptide binding]; other site 321956001001 trigger factor interaction site; other site 321956001002 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 321956001003 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 321956001004 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 321956001005 RNA binding site [nucleotide binding]; other site 321956001006 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 321956001007 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 321956001008 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 321956001009 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 321956001010 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 321956001011 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 321956001012 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 321956001013 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 321956001014 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 321956001015 5S rRNA interface [nucleotide binding]; other site 321956001016 L27 interface [polypeptide binding]; other site 321956001017 23S rRNA interface [nucleotide binding]; other site 321956001018 L5 interface [polypeptide binding]; other site 321956001019 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 321956001020 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 321956001021 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 321956001022 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 321956001023 23S rRNA binding site [nucleotide binding]; other site 321956001024 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 321956001025 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 321956001026 SecY translocase; Region: SecY; pfam00344 321956001027 adenylate kinase; Reviewed; Region: adk; PRK00279 321956001028 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 321956001029 AMP-binding site [chemical binding]; other site 321956001030 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 321956001031 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 321956001032 rRNA binding site [nucleotide binding]; other site 321956001033 predicted 30S ribosome binding site; other site 321956001034 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 321956001035 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 321956001036 30S ribosomal protein S13; Region: bact_S13; TIGR03631 321956001037 30S ribosomal protein S11; Validated; Region: PRK05309 321956001038 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 321956001039 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 321956001040 alphaNTD homodimer interface [polypeptide binding]; other site 321956001041 alphaNTD - beta interaction site [polypeptide binding]; other site 321956001042 alphaNTD - beta' interaction site [polypeptide binding]; other site 321956001043 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 321956001044 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 321956001045 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13640 321956001046 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 321956001047 Walker A/P-loop; other site 321956001048 ATP binding site [chemical binding]; other site 321956001049 Q-loop/lid; other site 321956001050 ABC transporter signature motif; other site 321956001051 Walker B; other site 321956001052 D-loop; other site 321956001053 H-loop/switch region; other site 321956001054 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13641 321956001055 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 321956001056 Walker A/P-loop; other site 321956001057 ATP binding site [chemical binding]; other site 321956001058 Q-loop/lid; other site 321956001059 ABC transporter signature motif; other site 321956001060 Walker B; other site 321956001061 D-loop; other site 321956001062 H-loop/switch region; other site 321956001063 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 321956001064 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 321956001065 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 321956001066 dimerization interface 3.5A [polypeptide binding]; other site 321956001067 active site 321956001068 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 321956001069 23S rRNA interface [nucleotide binding]; other site 321956001070 L3 interface [polypeptide binding]; other site 321956001071 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 321956001072 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 321956001073 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_14; cd04672 321956001074 nudix motif; other site 321956001075 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 321956001076 substrate binding site [chemical binding]; other site 321956001077 aromatic amino acid aminotransferase; Validated; Region: PRK07309 321956001078 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 321956001079 pyridoxal 5'-phosphate binding site [chemical binding]; other site 321956001080 homodimer interface [polypeptide binding]; other site 321956001081 catalytic residue [active] 321956001082 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 321956001083 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 321956001084 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 321956001085 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 321956001086 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 321956001087 DNA-binding site [nucleotide binding]; DNA binding site 321956001088 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 321956001089 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 321956001090 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 321956001091 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 321956001092 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 321956001093 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 321956001094 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 321956001095 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 321956001096 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 321956001097 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 321956001098 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 321956001099 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 321956001100 homodimer interface [polypeptide binding]; other site 321956001101 NAD binding pocket [chemical binding]; other site 321956001102 ATP binding pocket [chemical binding]; other site 321956001103 Mg binding site [ion binding]; other site 321956001104 active-site loop [active] 321956001105 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 321956001106 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 321956001107 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 321956001108 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 321956001109 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 321956001110 motif II; other site 321956001111 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 321956001112 SprT homologues; Region: SprT; cl01182 321956001113 hypothetical protein; Provisional; Region: PRK04351 321956001114 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 321956001115 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 321956001116 Part of AAA domain; Region: AAA_19; pfam13245 321956001117 Family description; Region: UvrD_C_2; pfam13538 321956001118 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 321956001119 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 321956001120 nucleotide binding pocket [chemical binding]; other site 321956001121 K-X-D-G motif; other site 321956001122 catalytic site [active] 321956001123 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 321956001124 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 321956001125 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 321956001126 Dimer interface [polypeptide binding]; other site 321956001127 N-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_1; cd13441 321956001128 putative dimer interface [polypeptide binding]; other site 321956001129 CamS sex pheromone cAM373 precursor; Region: CamS; pfam07537 321956001130 C-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_2; cd13440 321956001131 putative dimer interface [polypeptide binding]; other site 321956001132 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 321956001133 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 321956001134 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 321956001135 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 321956001136 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 321956001137 GatB domain; Region: GatB_Yqey; smart00845 321956001138 putative lipid kinase; Reviewed; Region: PRK13337 321956001139 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 321956001140 Protein of unknown function (DUF1211); Region: DUF1211; pfam06736 321956001141 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 321956001142 TRAM domain; Region: TRAM; pfam01938 321956001143 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 321956001144 S-adenosylmethionine binding site [chemical binding]; other site 321956001145 Mrr N-terminal domain; Region: Mrr_N; pfam14338 321956001146 Restriction endonuclease; Region: Mrr_cat; pfam04471 321956001147 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 321956001148 active site 321956001149 zinc binding site [ion binding]; other site 321956001150 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 321956001151 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 321956001152 Soluble P-type ATPase [General function prediction only]; Region: COG4087 321956001153 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 321956001154 metal-binding site [ion binding] 321956001155 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 321956001156 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 321956001157 ligand binding site [chemical binding]; other site 321956001158 flexible hinge region; other site 321956001159 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 321956001160 putative switch regulator; other site 321956001161 non-specific DNA interactions [nucleotide binding]; other site 321956001162 DNA binding site [nucleotide binding] 321956001163 sequence specific DNA binding site [nucleotide binding]; other site 321956001164 putative cAMP binding site [chemical binding]; other site 321956001165 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 321956001166 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 321956001167 A new structural DNA glycosylase containing HEAT-like repeats; Region: AlkD_like_1; cd07064 321956001168 active site 321956001169 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 321956001170 putative NADH binding site [chemical binding]; other site 321956001171 putative active site [active] 321956001172 nudix motif; other site 321956001173 putative metal binding site [ion binding]; other site 321956001174 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 321956001175 metal binding site [ion binding]; metal-binding site 321956001176 active site 321956001177 I-site; other site 321956001178 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 321956001179 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 321956001180 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 321956001181 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 321956001182 putative DNA binding site [nucleotide binding]; other site 321956001183 putative Zn2+ binding site [ion binding]; other site 321956001184 AsnC family; Region: AsnC_trans_reg; pfam01037 321956001185 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 321956001186 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 321956001187 glutaminase active site [active] 321956001188 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 321956001189 dimer interface [polypeptide binding]; other site 321956001190 active site 321956001191 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 321956001192 dimer interface [polypeptide binding]; other site 321956001193 active site 321956001194 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 321956001195 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 321956001196 Predicted permeases [General function prediction only]; Region: COG0679 321956001197 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 321956001198 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 321956001199 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 321956001200 ABC transporter; Region: ABC_tran_2; pfam12848 321956001201 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 321956001202 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 321956001203 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 321956001204 drug efflux system protein MdtG; Provisional; Region: PRK09874 321956001205 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 321956001206 putative substrate translocation pore; other site 321956001207 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 321956001208 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 321956001209 glutamate racemase; Provisional; Region: PRK00865 321956001210 Peptidase family C69; Region: Peptidase_C69; pfam03577 321956001211 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 321956001212 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 321956001213 oligomer interface [polypeptide binding]; other site 321956001214 active site 321956001215 metal binding site [ion binding]; metal-binding site 321956001216 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; pfam09819 321956001217 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 321956001218 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 321956001219 ATP-binding site [chemical binding]; other site 321956001220 Sugar specificity; other site 321956001221 Pyrimidine base specificity; other site 321956001222 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 321956001223 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 321956001224 Sugar specificity; other site 321956001225 Pyrimidine base specificity; other site 321956001226 ATP-binding site [chemical binding]; other site 321956001227 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 321956001228 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 321956001229 Walker A/P-loop; other site 321956001230 ATP binding site [chemical binding]; other site 321956001231 Q-loop/lid; other site 321956001232 ABC transporter signature motif; other site 321956001233 Walker B; other site 321956001234 D-loop; other site 321956001235 H-loop/switch region; other site 321956001236 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 321956001237 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 321956001238 substrate binding pocket [chemical binding]; other site 321956001239 membrane-bound complex binding site; other site 321956001240 hinge residues; other site 321956001241 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 321956001242 dimer interface [polypeptide binding]; other site 321956001243 conserved gate region; other site 321956001244 putative PBP binding loops; other site 321956001245 ABC-ATPase subunit interface; other site 321956001246 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 321956001247 dimer interface [polypeptide binding]; other site 321956001248 conserved gate region; other site 321956001249 putative PBP binding loops; other site 321956001250 ABC-ATPase subunit interface; other site 321956001251 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 321956001252 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 321956001253 substrate binding pocket [chemical binding]; other site 321956001254 membrane-bound complex binding site; other site 321956001255 hinge residues; other site 321956001256 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 321956001257 polyphosphate kinase; Provisional; Region: PRK05443 321956001258 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 321956001259 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 321956001260 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 321956001261 putative domain interface [polypeptide binding]; other site 321956001262 putative active site [active] 321956001263 catalytic site [active] 321956001264 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 321956001265 putative domain interface [polypeptide binding]; other site 321956001266 putative active site [active] 321956001267 catalytic site [active] 321956001268 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 321956001269 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 321956001270 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 321956001271 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 321956001272 substrate binding site [chemical binding]; other site 321956001273 dimer interface [polypeptide binding]; other site 321956001274 ATP binding site [chemical binding]; other site 321956001275 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 321956001276 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 321956001277 substrate binding site [chemical binding]; other site 321956001278 hexamer interface [polypeptide binding]; other site 321956001279 metal binding site [ion binding]; metal-binding site 321956001280 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 321956001281 tetramer (dimer of dimers) interface [polypeptide binding]; other site 321956001282 active site 321956001283 dimer interface [polypeptide binding]; other site 321956001284 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 321956001285 active site 321956001286 tetramer interface [polypeptide binding]; other site 321956001287 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 321956001288 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 321956001289 DNA-binding site [nucleotide binding]; DNA binding site 321956001290 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 321956001291 putative phosphoketolase; Provisional; Region: PRK05261 321956001292 XFP N-terminal domain; Region: XFP_N; pfam09364 321956001293 XFP C-terminal domain; Region: XFP_C; pfam09363 321956001294 Domain of unknown function DUF21; Region: DUF21; pfam01595 321956001295 FOG: CBS domain [General function prediction only]; Region: COG0517 321956001296 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 321956001297 Transporter associated domain; Region: CorC_HlyC; smart01091 321956001298 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 321956001299 active site 321956001300 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 321956001301 Amino acid permease; Region: AA_permease_2; pfam13520 321956001302 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 321956001303 active site 321956001304 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 321956001305 DEAD-like helicases superfamily; Region: DEXDc; smart00487 321956001306 ATP binding site [chemical binding]; other site 321956001307 putative Mg++ binding site [ion binding]; other site 321956001308 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 321956001309 nucleotide binding region [chemical binding]; other site 321956001310 ATP-binding site [chemical binding]; other site 321956001311 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 321956001312 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 321956001313 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 321956001314 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 321956001315 uracil transporter; Provisional; Region: PRK10720 321956001316 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 321956001317 Aluminium resistance protein; Region: Alum_res; pfam06838 321956001318 putative ornithine decarboxylase; Region: lacto_ODC_hypo; TIGR04318 321956001319 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 321956001320 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 321956001321 catalytic residue [active] 321956001322 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 321956001323 Amino acid permease; Region: AA_permease_2; pfam13520 321956001324 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 321956001325 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 321956001326 active site 321956001327 homodimer interface [polypeptide binding]; other site 321956001328 Predicted membrane protein [Function unknown]; Region: COG2246 321956001329 GtrA-like protein; Region: GtrA; pfam04138 321956001330 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 321956001331 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 321956001332 methionine aminopeptidase; Provisional; Region: PRK08671 321956001333 active site 321956001334 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 321956001335 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 321956001336 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 321956001337 active site 321956001338 tetramer interface; other site 321956001339 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 321956001340 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 321956001341 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 321956001342 TRAM domain; Region: TRAM; pfam01938 321956001343 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 321956001344 S-adenosylmethionine binding site [chemical binding]; other site 321956001345 recombination regulator RecX; Provisional; Region: recX; PRK14135 321956001346 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 321956001347 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 321956001348 Transporter associated domain; Region: CorC_HlyC; smart01091 321956001349 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 321956001350 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 321956001351 G1 box; other site 321956001352 putative GEF interaction site [polypeptide binding]; other site 321956001353 GTP/Mg2+ binding site [chemical binding]; other site 321956001354 Switch I region; other site 321956001355 G2 box; other site 321956001356 G3 box; other site 321956001357 Switch II region; other site 321956001358 G4 box; other site 321956001359 G5 box; other site 321956001360 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 321956001361 Domain of unknown function (DUF1827); Region: DUF1827; pfam08860 321956001362 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 321956001363 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 321956001364 Walker A motif; other site 321956001365 ATP binding site [chemical binding]; other site 321956001366 Walker B motif; other site 321956001367 arginine finger; other site 321956001368 UvrB/uvrC motif; Region: UVR; pfam02151 321956001369 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 321956001370 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 321956001371 Walker A motif; other site 321956001372 ATP binding site [chemical binding]; other site 321956001373 Walker B motif; other site 321956001374 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 321956001375 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 321956001376 dimerization domain swap beta strand [polypeptide binding]; other site 321956001377 regulatory protein interface [polypeptide binding]; other site 321956001378 active site 321956001379 regulatory phosphorylation site [posttranslational modification]; other site 321956001380 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 321956001381 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 321956001382 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 321956001383 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 321956001384 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 321956001385 ArsC family; Region: ArsC; pfam03960 321956001386 putative catalytic residues [active] 321956001387 thiol/disulfide switch; other site 321956001388 adaptor protein; Provisional; Region: PRK02315 321956001389 Competence protein CoiA-like family; Region: CoiA; cl11541 321956001390 Thioredoxin; Region: Thioredoxin_5; pfam13743 321956001391 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 321956001392 putative active site [active] 321956001393 putative metal binding residues [ion binding]; other site 321956001394 signature motif; other site 321956001395 putative triphosphate binding site [ion binding]; other site 321956001396 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 321956001397 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 321956001398 synthetase active site [active] 321956001399 NTP binding site [chemical binding]; other site 321956001400 metal binding site [ion binding]; metal-binding site 321956001401 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 321956001402 ATP-NAD kinase; Region: NAD_kinase; pfam01513 321956001403 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 321956001404 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 321956001405 active site 321956001406 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 321956001407 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 321956001408 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 321956001409 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 321956001410 Domain of unknown function DUF20; Region: UPF0118; pfam01594 321956001411 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 321956001412 Protein of unknown function (DUF1149); Region: DUF1149; cl11551 321956001413 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 321956001414 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 321956001415 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 321956001416 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 321956001417 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 321956001418 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 321956001419 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 321956001420 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 321956001421 classical (c) SDRs; Region: SDR_c; cd05233 321956001422 NAD(P) binding site [chemical binding]; other site 321956001423 active site 321956001424 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 321956001425 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 321956001426 non-specific DNA binding site [nucleotide binding]; other site 321956001427 salt bridge; other site 321956001428 sequence-specific DNA binding site [nucleotide binding]; other site 321956001429 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 321956001430 recombinase A; Provisional; Region: recA; PRK09354 321956001431 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 321956001432 hexamer interface [polypeptide binding]; other site 321956001433 Walker A motif; other site 321956001434 ATP binding site [chemical binding]; other site 321956001435 Walker B motif; other site 321956001436 phosphodiesterase; Provisional; Region: PRK12704 321956001437 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 321956001438 Zn2+ binding site [ion binding]; other site 321956001439 Mg2+ binding site [ion binding]; other site 321956001440 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 321956001441 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 321956001442 Mg++ binding site [ion binding]; other site 321956001443 putative catalytic motif [active] 321956001444 substrate binding site [chemical binding]; other site 321956001445 Uncharacterized conserved protein [Function unknown]; Region: COG1739 321956001446 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 321956001447 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 321956001448 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 321956001449 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 321956001450 active site 321956001451 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 321956001452 30S subunit binding site; other site 321956001453 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12906 321956001454 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 321956001455 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 321956001456 nucleotide binding region [chemical binding]; other site 321956001457 ATP-binding site [chemical binding]; other site 321956001458 peptide chain release factor 2; Provisional; Region: PRK05589 321956001459 This domain is found in peptide chain release factors; Region: PCRF; smart00937 321956001460 RF-1 domain; Region: RF-1; pfam00472 321956001461 HPr kinase/phosphorylase; Provisional; Region: PRK05428 321956001462 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 321956001463 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 321956001464 Hpr binding site; other site 321956001465 active site 321956001466 homohexamer subunit interaction site [polypeptide binding]; other site 321956001467 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 321956001468 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 321956001469 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 321956001470 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 321956001471 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 321956001472 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 321956001473 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 321956001474 excinuclease ABC subunit B; Provisional; Region: PRK05298 321956001475 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 321956001476 ATP binding site [chemical binding]; other site 321956001477 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 321956001478 nucleotide binding region [chemical binding]; other site 321956001479 ATP-binding site [chemical binding]; other site 321956001480 Ultra-violet resistance protein B; Region: UvrB; pfam12344 321956001481 UvrB/uvrC motif; Region: UVR; pfam02151 321956001482 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 321956001483 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 321956001484 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 321956001485 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 321956001486 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 321956001487 DmpA/OAT superfamily; composed of L-aminopeptidase D-amidase/D-esterase (DmpA), ornithine acetyltransferase (OAT) and similar proteins. DmpA is an aminopeptidase that releases N-terminal D and L amino acids from peptide substrates. This group represents...; Region: DmpA_OAT; cl00603 321956001488 RNAP_Rpb7_N_like: This conserved domain represents the N-terminal ribonucleoprotein (RNP) domain of the Rpb7 subunit of eukaryotic RNA polymerase (RNAP) II and its homologs, Rpa43 of eukaryotic RNAP I, Rpc25 of eukaryotic RNAP III, and RpoE (subunit E)...; Region: RNAP_Rpb7_N_like; cl04309 321956001489 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 321956001490 AAA domain; Region: AAA_18; pfam13238 321956001491 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 321956001492 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 321956001493 phosphate binding site [ion binding]; other site 321956001494 putative substrate binding pocket [chemical binding]; other site 321956001495 dimer interface [polypeptide binding]; other site 321956001496 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 321956001497 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 321956001498 Clp protease; Region: CLP_protease; pfam00574 321956001499 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 321956001500 oligomer interface [polypeptide binding]; other site 321956001501 active site residues [active] 321956001502 SH3-like domain; Region: SH3_8; pfam13457 321956001503 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 321956001504 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 321956001505 Walker A/P-loop; other site 321956001506 ATP binding site [chemical binding]; other site 321956001507 Q-loop/lid; other site 321956001508 ABC transporter signature motif; other site 321956001509 Walker B; other site 321956001510 D-loop; other site 321956001511 H-loop/switch region; other site 321956001512 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 321956001513 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 321956001514 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 321956001515 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 321956001516 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 321956001517 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 321956001518 Phosphoglycerate kinase; Region: PGK; pfam00162 321956001519 substrate binding site [chemical binding]; other site 321956001520 hinge regions; other site 321956001521 ADP binding site [chemical binding]; other site 321956001522 catalytic site [active] 321956001523 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 321956001524 triosephosphate isomerase; Provisional; Region: PRK14567 321956001525 substrate binding site [chemical binding]; other site 321956001526 dimer interface [polypeptide binding]; other site 321956001527 catalytic triad [active] 321956001528 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 321956001529 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 321956001530 active site 321956001531 motif I; other site 321956001532 motif II; other site 321956001533 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 321956001534 motif II; other site 321956001535 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 321956001536 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 321956001537 ligand binding site [chemical binding]; other site 321956001538 active site 321956001539 UGI interface [polypeptide binding]; other site 321956001540 catalytic site [active] 321956001541 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 321956001542 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 321956001543 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 321956001544 active site 321956001545 catalytic site [active] 321956001546 substrate binding site [chemical binding]; other site 321956001547 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 321956001548 FAD binding domain; Region: FAD_binding_4; pfam01565 321956001549 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 321956001550 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 321956001551 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 321956001552 Walker A/P-loop; other site 321956001553 ATP binding site [chemical binding]; other site 321956001554 Q-loop/lid; other site 321956001555 ABC transporter signature motif; other site 321956001556 Walker B; other site 321956001557 D-loop; other site 321956001558 H-loop/switch region; other site 321956001559 TOBE domain; Region: TOBE_2; pfam08402 321956001560 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 321956001561 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 321956001562 dimer interface [polypeptide binding]; other site 321956001563 conserved gate region; other site 321956001564 putative PBP binding loops; other site 321956001565 ABC-ATPase subunit interface; other site 321956001566 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 321956001567 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 321956001568 dimer interface [polypeptide binding]; other site 321956001569 conserved gate region; other site 321956001570 ABC-ATPase subunit interface; other site 321956001571 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 321956001572 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 321956001573 Uncharacterized conserved protein [Function unknown]; Region: COG1624 321956001574 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 321956001575 YbbR-like protein; Region: YbbR; pfam07949 321956001576 YbbR-like protein; Region: YbbR; pfam07949 321956001577 YbbR-like protein; Region: YbbR; pfam07949 321956001578 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 321956001579 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 321956001580 active site 321956001581 substrate binding site [chemical binding]; other site 321956001582 metal binding site [ion binding]; metal-binding site 321956001583 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 321956001584 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 321956001585 active site 321956001586 motif I; other site 321956001587 motif II; other site 321956001588 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 321956001589 Penicillinase repressor; Region: Pencillinase_R; pfam03965 321956001590 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 321956001591 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 321956001592 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 321956001593 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 321956001594 motif II; other site 321956001595 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 321956001596 camphor resistance protein CrcB; Provisional; Region: PRK14220 321956001597 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 321956001598 metal binding site [ion binding]; metal-binding site 321956001599 active site 321956001600 I-site; other site 321956001601 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 321956001602 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 321956001603 metal binding site [ion binding]; metal-binding site 321956001604 active site 321956001605 I-site; other site 321956001606 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 321956001607 Low molecular weight phosphatase family; Region: LMWPc; cd00115 321956001608 active site 321956001609 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 321956001610 NADH(P)-binding; Region: NAD_binding_10; pfam13460 321956001611 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 321956001612 Amino acid permease; Region: AA_permease_2; pfam13520 321956001613 methionine sulfoxide reductase A; Provisional; Region: PRK14054 321956001614 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 321956001615 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 321956001616 active site 321956001617 nucleophile elbow; other site 321956001618 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 321956001619 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 321956001620 intersubunit interface [polypeptide binding]; other site 321956001621 hypothetical protein; Validated; Region: PRK00110 321956001622 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 321956001623 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 321956001624 Walker A motif; other site 321956001625 ATP binding site [chemical binding]; other site 321956001626 Walker B motif; other site 321956001627 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 321956001628 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 321956001629 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 321956001630 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 321956001631 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 321956001632 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 321956001633 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 321956001634 S-adenosylmethionine binding site [chemical binding]; other site 321956001635 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 321956001636 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 321956001637 propionate/acetate kinase; Provisional; Region: PRK12379 321956001638 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 321956001639 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 321956001640 active site 321956001641 phosphorylation site [posttranslational modification] 321956001642 intermolecular recognition site; other site 321956001643 dimerization interface [polypeptide binding]; other site 321956001644 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 321956001645 DNA binding site [nucleotide binding] 321956001646 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 321956001647 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 321956001648 dimerization interface [polypeptide binding]; other site 321956001649 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 321956001650 dimer interface [polypeptide binding]; other site 321956001651 phosphorylation site [posttranslational modification] 321956001652 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 321956001653 ATP binding site [chemical binding]; other site 321956001654 Mg2+ binding site [ion binding]; other site 321956001655 G-X-G motif; other site 321956001656 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 321956001657 Sulfatase; Region: Sulfatase; pfam00884 321956001658 VanZ like family; Region: VanZ; cl01971 321956001659 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 321956001660 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 321956001661 active site 321956001662 dimer interface [polypeptide binding]; other site 321956001663 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 321956001664 dimer interface [polypeptide binding]; other site 321956001665 active site 321956001666 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 321956001667 Beta-lactamase; Region: Beta-lactamase; pfam00144 321956001668 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 321956001669 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 321956001670 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 321956001671 thymidine kinase; Provisional; Region: PRK04296 321956001672 peptide chain release factor 1; Validated; Region: prfA; PRK00591 321956001673 This domain is found in peptide chain release factors; Region: PCRF; smart00937 321956001674 RF-1 domain; Region: RF-1; pfam00472 321956001675 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 321956001676 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 321956001677 S-adenosylmethionine binding site [chemical binding]; other site 321956001678 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 321956001679 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 321956001680 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 321956001681 active site 321956001682 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 321956001683 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 321956001684 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 321956001685 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 321956001686 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 321956001687 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 321956001688 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 321956001689 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 321956001690 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 321956001691 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 321956001692 beta subunit interaction interface [polypeptide binding]; other site 321956001693 Walker A motif; other site 321956001694 ATP binding site [chemical binding]; other site 321956001695 Walker B motif; other site 321956001696 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 321956001697 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 321956001698 core domain interface [polypeptide binding]; other site 321956001699 delta subunit interface [polypeptide binding]; other site 321956001700 epsilon subunit interface [polypeptide binding]; other site 321956001701 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 321956001702 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 321956001703 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 321956001704 alpha subunit interaction interface [polypeptide binding]; other site 321956001705 Walker A motif; other site 321956001706 ATP binding site [chemical binding]; other site 321956001707 Walker B motif; other site 321956001708 inhibitor binding site; inhibition site 321956001709 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 321956001710 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 321956001711 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 321956001712 gamma subunit interface [polypeptide binding]; other site 321956001713 epsilon subunit interface [polypeptide binding]; other site 321956001714 LBP interface [polypeptide binding]; other site 321956001715 Protein of unknown function (DUF1146); Region: DUF1146; pfam06612 321956001716 rod shape-determining protein MreB; Provisional; Region: PRK13930 321956001717 MreB and similar proteins; Region: MreB_like; cd10225 321956001718 nucleotide binding site [chemical binding]; other site 321956001719 Mg binding site [ion binding]; other site 321956001720 putative protofilament interaction site [polypeptide binding]; other site 321956001721 RodZ interaction site [polypeptide binding]; other site 321956001722 hypothetical protein; Provisional; Region: PRK14379 321956001723 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 321956001724 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 321956001725 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 321956001726 Ligand Binding Site [chemical binding]; other site 321956001727 recombination factor protein RarA; Reviewed; Region: PRK13342 321956001728 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 321956001729 Walker A motif; other site 321956001730 ATP binding site [chemical binding]; other site 321956001731 Walker B motif; other site 321956001732 arginine finger; other site 321956001733 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 321956001734 Protein of unknown function (DUF1694); Region: DUF1694; pfam07997 321956001735 ribosomal protein S4, bacterial/organelle type; Region: rpsD_bact; TIGR01017 321956001736 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 321956001737 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 321956001738 RNA binding surface [nucleotide binding]; other site 321956001739 Septation ring formation regulator, EzrA; Region: EzrA; pfam06160 321956001740 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 321956001741 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 321956001742 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 321956001743 catalytic residue [active] 321956001744 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 321956001745 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 321956001746 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 321956001747 Ligand Binding Site [chemical binding]; other site 321956001748 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 321956001749 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 321956001750 RNA binding surface [nucleotide binding]; other site 321956001751 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 321956001752 active site 321956001753 uracil binding [chemical binding]; other site 321956001754 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 321956001755 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 321956001756 active site 321956001757 HIGH motif; other site 321956001758 nucleotide binding site [chemical binding]; other site 321956001759 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 321956001760 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 321956001761 active site 321956001762 KMSKS motif; other site 321956001763 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 321956001764 tRNA binding surface [nucleotide binding]; other site 321956001765 anticodon binding site; other site 321956001766 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 321956001767 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 321956001768 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 321956001769 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 321956001770 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 321956001771 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 321956001772 motif II; other site 321956001773 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 321956001774 MPN+ (JAMM) motif; other site 321956001775 Zinc-binding site [ion binding]; other site 321956001776 rod shape-determining protein MreB; Provisional; Region: PRK13927 321956001777 MreB and similar proteins; Region: MreB_like; cd10225 321956001778 nucleotide binding site [chemical binding]; other site 321956001779 Mg binding site [ion binding]; other site 321956001780 putative protofilament interaction site [polypeptide binding]; other site 321956001781 RodZ interaction site [polypeptide binding]; other site 321956001782 rod shape-determining protein MreC; Provisional; Region: PRK13922 321956001783 rod shape-determining protein MreC; Region: MreC; pfam04085 321956001784 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 321956001785 Protein of unknown function (DUF4044); Region: DUF4044; pfam13253 321956001786 cell division protein MraZ; Reviewed; Region: PRK00326 321956001787 MraZ protein; Region: MraZ; pfam02381 321956001788 MraZ protein; Region: MraZ; pfam02381 321956001789 MraW methylase family; Region: Methyltransf_5; pfam01795 321956001790 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 321956001791 cell division protein FtsL; Region: ftsL_broad; TIGR02209 321956001792 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 321956001793 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 321956001794 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 321956001795 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 321956001796 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 321956001797 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 321956001798 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 321956001799 Mg++ binding site [ion binding]; other site 321956001800 putative catalytic motif [active] 321956001801 putative substrate binding site [chemical binding]; other site 321956001802 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 321956001803 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 321956001804 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 321956001805 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 321956001806 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 321956001807 active site 321956001808 homodimer interface [polypeptide binding]; other site 321956001809 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 321956001810 Cell division protein FtsQ; Region: FtsQ; pfam03799 321956001811 cell division protein FtsA; Region: ftsA; TIGR01174 321956001812 Cell division protein FtsA; Region: FtsA; smart00842 321956001813 Cell division protein FtsA; Region: FtsA; pfam14450 321956001814 cell division protein FtsZ; Validated; Region: PRK09330 321956001815 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 321956001816 nucleotide binding site [chemical binding]; other site 321956001817 SulA interaction site; other site 321956001818 Protein of unknown function (DUF552); Region: DUF552; cl00775 321956001819 YGGT family; Region: YGGT; pfam02325 321956001820 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 321956001821 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 321956001822 RNA binding surface [nucleotide binding]; other site 321956001823 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 321956001824 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 321956001825 active site 321956001826 HIGH motif; other site 321956001827 nucleotide binding site [chemical binding]; other site 321956001828 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 321956001829 active site 321956001830 KMSKS motif; other site 321956001831 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 321956001832 tRNA binding surface [nucleotide binding]; other site 321956001833 anticodon binding site; other site 321956001834 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 321956001835 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 321956001836 DNA-binding site [nucleotide binding]; DNA binding site 321956001837 RNA-binding motif; other site 321956001838 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 321956001839 dimer interface [polypeptide binding]; other site 321956001840 ADP-ribose binding site [chemical binding]; other site 321956001841 active site 321956001842 nudix motif; other site 321956001843 metal binding site [ion binding]; metal-binding site 321956001844 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 321956001845 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 321956001846 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 321956001847 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 321956001848 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 321956001849 catalytic residue [active] 321956001850 Putative amino acid metabolism; Region: DUF1831; pfam08866 321956001851 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 321956001852 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 321956001853 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 321956001854 catalytic core [active] 321956001855 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 321956001856 binding surface 321956001857 TPR motif; other site 321956001858 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 321956001859 binding surface 321956001860 TPR motif; other site 321956001861 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 321956001862 AAA domain; Region: AAA_30; pfam13604 321956001863 Family description; Region: UvrD_C_2; pfam13538 321956001864 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 321956001865 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 321956001866 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 321956001867 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 321956001868 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 321956001869 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 321956001870 hypothetical protein; Provisional; Region: PRK13667 321956001871 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 321956001872 active site 321956001873 catalytic residues [active] 321956001874 metal binding site [ion binding]; metal-binding site 321956001875 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 321956001876 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 321956001877 putative GEF interaction site [polypeptide binding]; other site 321956001878 G1 box; other site 321956001879 GTP/Mg2+ binding site [chemical binding]; other site 321956001880 Switch I region; other site 321956001881 G2 box; other site 321956001882 G3 box; other site 321956001883 Switch II region; other site 321956001884 G4 box; other site 321956001885 G5 box; other site 321956001886 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 321956001887 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 321956001888 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 321956001889 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; pfam09902 321956001890 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 321956001891 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 321956001892 S-adenosylmethionine binding site [chemical binding]; other site 321956001893 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 321956001894 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 321956001895 active site 321956001896 (T/H)XGH motif; other site 321956001897 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 321956001898 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 321956001899 SLBB domain; Region: SLBB; pfam10531 321956001900 Helix-hairpin-helix motif; Region: HHH; pfam00633 321956001901 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 321956001902 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 321956001903 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 321956001904 Competence protein; Region: Competence; pfam03772 321956001905 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 321956001906 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 321956001907 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 321956001908 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 321956001909 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 321956001910 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 321956001911 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 321956001912 16S/18S rRNA binding site [nucleotide binding]; other site 321956001913 S13e-L30e interaction site [polypeptide binding]; other site 321956001914 25S rRNA binding site [nucleotide binding]; other site 321956001915 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 321956001916 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 321956001917 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 321956001918 GIY-YIG motif/motif A; other site 321956001919 active site 321956001920 catalytic site [active] 321956001921 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 321956001922 elongation factor Tu; Reviewed; Region: PRK00049 321956001923 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 321956001924 G1 box; other site 321956001925 GEF interaction site [polypeptide binding]; other site 321956001926 GTP/Mg2+ binding site [chemical binding]; other site 321956001927 Switch I region; other site 321956001928 G2 box; other site 321956001929 G3 box; other site 321956001930 Switch II region; other site 321956001931 G4 box; other site 321956001932 G5 box; other site 321956001933 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 321956001934 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 321956001935 Antibiotic Binding Site [chemical binding]; other site 321956001936 trigger factor; Provisional; Region: tig; PRK01490 321956001937 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 321956001938 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 321956001939 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 321956001940 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 321956001941 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 321956001942 Walker A motif; other site 321956001943 ATP binding site [chemical binding]; other site 321956001944 Walker B motif; other site 321956001945 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 321956001946 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 321956001947 G1 box; other site 321956001948 GTP/Mg2+ binding site [chemical binding]; other site 321956001949 Switch I region; other site 321956001950 G2 box; other site 321956001951 G3 box; other site 321956001952 Switch II region; other site 321956001953 G4 box; other site 321956001954 G5 box; other site 321956001955 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 321956001956 nucleophilic elbow; other site 321956001957 catalytic triad; other site 321956001958 Short repeat of unknown function (DUF308); Region: DUF308; pfam03729 321956001959 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 321956001960 putative FMN binding site [chemical binding]; other site 321956001961 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 321956001962 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 321956001963 peptide binding site [polypeptide binding]; other site 321956001964 ABC transporter C family member; Provisional; Region: PLN03232 321956001965 thymidylate synthase; Region: thym_sym; TIGR03284 321956001966 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 321956001967 dimerization interface [polypeptide binding]; other site 321956001968 active site 321956001969 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 321956001970 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 321956001971 folate binding site [chemical binding]; other site 321956001972 NADP+ binding site [chemical binding]; other site 321956001973 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 321956001974 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 321956001975 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 321956001976 motif II; other site 321956001977 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 321956001978 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 321956001979 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 321956001980 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 321956001981 Walker A/P-loop; other site 321956001982 ATP binding site [chemical binding]; other site 321956001983 Q-loop/lid; other site 321956001984 ABC transporter signature motif; other site 321956001985 Walker B; other site 321956001986 D-loop; other site 321956001987 H-loop/switch region; other site 321956001988 NIL domain; Region: NIL; pfam09383 321956001989 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 321956001990 dimer interface [polypeptide binding]; other site 321956001991 conserved gate region; other site 321956001992 ABC-ATPase subunit interface; other site 321956001993 L-aspartate oxidase; Provisional; Region: PRK06175 321956001994 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 321956001995 L-aspartate oxidase; Provisional; Region: PRK06175 321956001996 Transposase; Region: DEDD_Tnp_IS110; pfam01548 321956001997 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 321956001998 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 321956001999 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 321956002000 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 321956002001 pyridoxal 5'-phosphate binding site [chemical binding]; other site 321956002002 homodimer interface [polypeptide binding]; other site 321956002003 catalytic residue [active] 321956002004 Transcriptional regulator [Transcription]; Region: LysR; COG0583 321956002005 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 321956002006 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 321956002007 dimerization interface [polypeptide binding]; other site 321956002008 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 321956002009 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 321956002010 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 321956002011 active site 321956002012 HIGH motif; other site 321956002013 KMSK motif region; other site 321956002014 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 321956002015 tRNA binding surface [nucleotide binding]; other site 321956002016 anticodon binding site; other site 321956002017 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 321956002018 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 321956002019 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 321956002020 Flavoprotein; Region: Flavoprotein; pfam02441 321956002021 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 321956002022 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 321956002023 Amidohydrolase; Region: Amidohydro_2; pfam04909 321956002024 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 321956002025 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 321956002026 ATP binding site [chemical binding]; other site 321956002027 putative Mg++ binding site [ion binding]; other site 321956002028 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 321956002029 nucleotide binding region [chemical binding]; other site 321956002030 ATP-binding site [chemical binding]; other site 321956002031 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 321956002032 HRDC domain; Region: HRDC; pfam00570 321956002033 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 321956002034 active site 321956002035 dimerization interface [polypeptide binding]; other site 321956002036 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 321956002037 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 321956002038 GIY-YIG motif/motif A; other site 321956002039 active site 321956002040 catalytic site [active] 321956002041 putative DNA binding site [nucleotide binding]; other site 321956002042 metal binding site [ion binding]; metal-binding site 321956002043 UvrB/uvrC motif; Region: UVR; pfam02151 321956002044 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 321956002045 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 321956002046 DNA binding site [nucleotide binding] 321956002047 GTPase CgtA; Reviewed; Region: obgE; PRK12297 321956002048 GTP1/OBG; Region: GTP1_OBG; pfam01018 321956002049 Obg GTPase; Region: Obg; cd01898 321956002050 G1 box; other site 321956002051 GTP/Mg2+ binding site [chemical binding]; other site 321956002052 Switch I region; other site 321956002053 G2 box; other site 321956002054 G3 box; other site 321956002055 Switch II region; other site 321956002056 G4 box; other site 321956002057 G5 box; other site 321956002058 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 321956002059 Acyltransferase family; Region: Acyl_transf_3; pfam01757 321956002060 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 321956002061 catalytic triad [active] 321956002062 catalytic triad [active] 321956002063 oxyanion hole [active] 321956002064 ribonuclease Z; Region: RNase_Z; TIGR02651 321956002065 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 321956002066 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 321956002067 NAD(P) binding site [chemical binding]; other site 321956002068 active site 321956002069 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 321956002070 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 321956002071 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 321956002072 active site 321956002073 metal binding site [ion binding]; metal-binding site 321956002074 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 321956002075 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 321956002076 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 321956002077 nucleotide binding region [chemical binding]; other site 321956002078 ATP-binding site [chemical binding]; other site 321956002079 hypothetical protein; Provisional; Region: PRK13690 321956002080 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 321956002081 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 321956002082 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 321956002083 active site 321956002084 PHP Thumb interface [polypeptide binding]; other site 321956002085 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 321956002086 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 321956002087 active site 321956002088 ADP/pyrophosphate binding site [chemical binding]; other site 321956002089 dimerization interface [polypeptide binding]; other site 321956002090 allosteric effector site; other site 321956002091 fructose-1,6-bisphosphate binding site; other site 321956002092 pyruvate kinase; Provisional; Region: PRK06354 321956002093 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; cd00288 321956002094 domain interfaces; other site 321956002095 active site 321956002096 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 321956002097 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 321956002098 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 321956002099 S1 domain; Region: S1_2; pfam13509 321956002100 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 321956002101 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 321956002102 active site 321956002103 Int/Topo IB signature motif; other site 321956002104 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 321956002105 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 321956002106 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 321956002107 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 321956002108 RNA binding surface [nucleotide binding]; other site 321956002109 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 321956002110 active site 321956002111 Predicted membrane protein [Function unknown]; Region: COG3601 321956002112 cytidylate kinase; Region: cmk; TIGR00017 321956002113 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 321956002114 CMP-binding site; other site 321956002115 The sites determining sugar specificity; other site 321956002116 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 321956002117 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 321956002118 RNA binding site [nucleotide binding]; other site 321956002119 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 321956002120 RNA binding site [nucleotide binding]; other site 321956002121 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 321956002122 RNA binding site [nucleotide binding]; other site 321956002123 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 321956002124 RNA binding site [nucleotide binding]; other site 321956002125 GTP-binding protein Der; Reviewed; Region: PRK00093 321956002126 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 321956002127 G1 box; other site 321956002128 GTP/Mg2+ binding site [chemical binding]; other site 321956002129 Switch I region; other site 321956002130 G2 box; other site 321956002131 Switch II region; other site 321956002132 G3 box; other site 321956002133 G4 box; other site 321956002134 G5 box; other site 321956002135 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 321956002136 G1 box; other site 321956002137 GTP/Mg2+ binding site [chemical binding]; other site 321956002138 Switch I region; other site 321956002139 G2 box; other site 321956002140 G3 box; other site 321956002141 Switch II region; other site 321956002142 G4 box; other site 321956002143 G5 box; other site 321956002144 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 321956002145 IHF dimer interface [polypeptide binding]; other site 321956002146 IHF - DNA interface [nucleotide binding]; other site 321956002147 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 321956002148 binding surface 321956002149 TPR motif; other site 321956002150 TPR repeat; Region: TPR_11; pfam13414 321956002151 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 321956002152 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 321956002153 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 321956002154 Transcriptional regulator [Transcription]; Region: LysR; COG0583 321956002155 LysR substrate binding domain; Region: LysR_substrate; pfam03466 321956002156 dimerization interface [polypeptide binding]; other site 321956002157 Transcriptional regulator [Transcription]; Region: LysR; COG0583 321956002158 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 321956002159 dimerization interface [polypeptide binding]; other site 321956002160 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 321956002161 helicase Cas3; Provisional; Region: PRK09694 321956002162 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 321956002163 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 321956002164 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 321956002165 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 321956002166 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 321956002167 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 321956002168 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09756 321956002169 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 321956002170 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 321956002171 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09755 321956002172 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 321956002173 active site 321956002174 catalytic site [active] 321956002175 substrate binding site [chemical binding]; other site 321956002176 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 321956002177 synthetase active site [active] 321956002178 NTP binding site [chemical binding]; other site 321956002179 metal binding site [ion binding]; metal-binding site 321956002180 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 321956002181 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 321956002182 active site 321956002183 phosphorylation site [posttranslational modification] 321956002184 intermolecular recognition site; other site 321956002185 dimerization interface [polypeptide binding]; other site 321956002186 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 321956002187 DNA binding site [nucleotide binding] 321956002188 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 321956002189 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 321956002190 dimer interface [polypeptide binding]; other site 321956002191 phosphorylation site [posttranslational modification] 321956002192 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 321956002193 ATP binding site [chemical binding]; other site 321956002194 Mg2+ binding site [ion binding]; other site 321956002195 G-X-G motif; other site 321956002196 putative acyltransferase; Provisional; Region: PRK05790 321956002197 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 321956002198 dimer interface [polypeptide binding]; other site 321956002199 active site 321956002200 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 321956002201 homodimer interface [polypeptide binding]; other site 321956002202 catalytic residues [active] 321956002203 NAD binding site [chemical binding]; other site 321956002204 substrate binding pocket [chemical binding]; other site 321956002205 flexible flap; other site 321956002206 "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 321956002207 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 321956002208 dimer interface [polypeptide binding]; other site 321956002209 active site 321956002210 Uncharacterized conserved protein [Function unknown]; Region: COG2966 321956002211 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 321956002212 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 321956002213 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 321956002214 putative deacylase active site [active] 321956002215 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 321956002216 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 321956002217 S-adenosylmethionine binding site [chemical binding]; other site 321956002218 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 321956002219 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 321956002220 Zn2+ binding site [ion binding]; other site 321956002221 Mg2+ binding site [ion binding]; other site 321956002222 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 321956002223 synthetase active site [active] 321956002224 NTP binding site [chemical binding]; other site 321956002225 metal binding site [ion binding]; metal-binding site 321956002226 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 321956002227 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 321956002228 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 321956002229 putative active site [active] 321956002230 dimerization interface [polypeptide binding]; other site 321956002231 putative tRNAtyr binding site [nucleotide binding]; other site 321956002232 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 321956002233 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 321956002234 dimer interface [polypeptide binding]; other site 321956002235 motif 1; other site 321956002236 active site 321956002237 motif 2; other site 321956002238 motif 3; other site 321956002239 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 321956002240 anticodon binding site; other site 321956002241 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 321956002242 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 321956002243 dimer interface [polypeptide binding]; other site 321956002244 anticodon binding site; other site 321956002245 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 321956002246 homodimer interface [polypeptide binding]; other site 321956002247 motif 1; other site 321956002248 active site 321956002249 motif 2; other site 321956002250 GAD domain; Region: GAD; pfam02938 321956002251 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 321956002252 active site 321956002253 motif 3; other site 321956002254 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 321956002255 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 321956002256 Domain of unknown function DUF20; Region: UPF0118; pfam01594 321956002257 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 321956002258 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 321956002259 dimer interface [polypeptide binding]; other site 321956002260 active site 321956002261 CoA binding pocket [chemical binding]; other site 321956002262 acyl carrier protein; Provisional; Region: acpP; PRK00982 321956002263 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 321956002264 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 321956002265 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 321956002266 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 321956002267 NAD(P) binding site [chemical binding]; other site 321956002268 active site 321956002269 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 321956002270 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 321956002271 dimer interface [polypeptide binding]; other site 321956002272 active site 321956002273 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 321956002274 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 321956002275 carboxyltransferase (CT) interaction site; other site 321956002276 biotinylation site [posttranslational modification]; other site 321956002277 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 321956002278 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 321956002279 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 321956002280 ATP-grasp domain; Region: ATP-grasp_4; cl17255 321956002281 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 321956002282 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 321956002283 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 321956002284 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 321956002285 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06079 321956002286 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 321956002287 NAD binding site [chemical binding]; other site 321956002288 homotetramer interface [polypeptide binding]; other site 321956002289 homodimer interface [polypeptide binding]; other site 321956002290 substrate binding site [chemical binding]; other site 321956002291 active site 321956002292 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 321956002293 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 321956002294 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 321956002295 Domain of Unknown Function with PDB structure (DUF3862); Region: DUF3862; pfam12978 321956002296 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 321956002297 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 321956002298 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 321956002299 PBP superfamily domain; Region: PBP_like_2; cl17296 321956002300 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 321956002301 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 321956002302 dimer interface [polypeptide binding]; other site 321956002303 conserved gate region; other site 321956002304 putative PBP binding loops; other site 321956002305 ABC-ATPase subunit interface; other site 321956002306 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 321956002307 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 321956002308 dimer interface [polypeptide binding]; other site 321956002309 conserved gate region; other site 321956002310 putative PBP binding loops; other site 321956002311 ABC-ATPase subunit interface; other site 321956002312 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 321956002313 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 321956002314 Walker A/P-loop; other site 321956002315 ATP binding site [chemical binding]; other site 321956002316 Q-loop/lid; other site 321956002317 ABC transporter signature motif; other site 321956002318 Walker B; other site 321956002319 D-loop; other site 321956002320 H-loop/switch region; other site 321956002321 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 321956002322 PhoU domain; Region: PhoU; pfam01895 321956002323 PhoU domain; Region: PhoU; pfam01895 321956002324 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 321956002325 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 321956002326 active site 321956002327 phosphorylation site [posttranslational modification] 321956002328 intermolecular recognition site; other site 321956002329 dimerization interface [polypeptide binding]; other site 321956002330 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 321956002331 DNA binding site [nucleotide binding] 321956002332 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 321956002333 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 321956002334 dimer interface [polypeptide binding]; other site 321956002335 phosphorylation site [posttranslational modification] 321956002336 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 321956002337 ATP binding site [chemical binding]; other site 321956002338 Mg2+ binding site [ion binding]; other site 321956002339 G-X-G motif; other site 321956002340 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 321956002341 dimer interface [polypeptide binding]; other site 321956002342 ADP-ribose binding site [chemical binding]; other site 321956002343 active site 321956002344 nudix motif; other site 321956002345 metal binding site [ion binding]; metal-binding site 321956002346 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 321956002347 active site 321956002348 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 321956002349 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_33; cd04692 321956002350 nudix motif; other site 321956002351 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 321956002352 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 321956002353 Walker A/P-loop; other site 321956002354 ATP binding site [chemical binding]; other site 321956002355 Q-loop/lid; other site 321956002356 ABC transporter signature motif; other site 321956002357 Walker B; other site 321956002358 D-loop; other site 321956002359 H-loop/switch region; other site 321956002360 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 321956002361 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 321956002362 Walker A/P-loop; other site 321956002363 ATP binding site [chemical binding]; other site 321956002364 Q-loop/lid; other site 321956002365 ABC transporter signature motif; other site 321956002366 Walker B; other site 321956002367 D-loop; other site 321956002368 H-loop/switch region; other site 321956002369 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 321956002370 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 321956002371 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 321956002372 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 321956002373 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 321956002374 metal binding site [ion binding]; metal-binding site 321956002375 active site 321956002376 I-site; other site 321956002377 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 321956002378 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 321956002379 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 321956002380 MarR family; Region: MarR; pfam01047 321956002381 MarR family; Region: MarR_2; cl17246 321956002382 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 321956002383 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 321956002384 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 321956002385 Mg2+ binding site [ion binding]; other site 321956002386 G-X-G motif; other site 321956002387 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 321956002388 anchoring element; other site 321956002389 dimer interface [polypeptide binding]; other site 321956002390 ATP binding site [chemical binding]; other site 321956002391 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 321956002392 active site 321956002393 putative metal-binding site [ion binding]; other site 321956002394 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 321956002395 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 321956002396 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 321956002397 CAP-like domain; other site 321956002398 active site 321956002399 primary dimer interface [polypeptide binding]; other site 321956002400 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 321956002401 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 321956002402 DHH family; Region: DHH; pfam01368 321956002403 DHHA2 domain; Region: DHHA2; pfam02833 321956002404 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 321956002405 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 321956002406 homotetramer interface [polypeptide binding]; other site 321956002407 FMN binding site [chemical binding]; other site 321956002408 homodimer contacts [polypeptide binding]; other site 321956002409 putative active site [active] 321956002410 putative substrate binding site [chemical binding]; other site 321956002411 phosphomevalonate kinase, ERG8-type, Gram-positive branch; Region: Pmev_kin_Gr_pos; TIGR01220 321956002412 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 321956002413 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 321956002414 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 321956002415 diphosphomevalonate decarboxylase; Region: PLN02407 321956002416 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 321956002417 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 321956002418 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 321956002419 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 321956002420 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 321956002421 DEAD/DEAH box helicase; Region: DEAD; pfam00270 321956002422 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 321956002423 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 321956002424 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 321956002425 active site 321956002426 catalytic site [active] 321956002427 substrate binding site [chemical binding]; other site 321956002428 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 321956002429 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 321956002430 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 321956002431 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 321956002432 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 321956002433 putative dimer interface [polypeptide binding]; other site 321956002434 putative anticodon binding site; other site 321956002435 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 321956002436 homodimer interface [polypeptide binding]; other site 321956002437 motif 1; other site 321956002438 motif 2; other site 321956002439 active site 321956002440 motif 3; other site 321956002441 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 321956002442 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 321956002443 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 321956002444 endonuclease III; Region: ENDO3c; smart00478 321956002445 minor groove reading motif; other site 321956002446 helix-hairpin-helix signature motif; other site 321956002447 substrate binding pocket [chemical binding]; other site 321956002448 active site 321956002449 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 321956002450 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 321956002451 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 321956002452 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 321956002453 D-lactate dehydrogenase; Validated; Region: PRK08605 321956002454 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 321956002455 homodimer interface [polypeptide binding]; other site 321956002456 ligand binding site [chemical binding]; other site 321956002457 NAD binding site [chemical binding]; other site 321956002458 catalytic site [active] 321956002459 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 321956002460 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 321956002461 Transglycosylase; Region: Transgly; pfam00912 321956002462 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 321956002463 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 321956002464 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 321956002465 hypothetical protein; Provisional; Region: PRK13660 321956002466 DivIVA protein; Region: DivIVA; pfam05103 321956002467 DivIVA domain; Region: DivI1A_domain; TIGR03544 321956002468 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 321956002469 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 321956002470 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 321956002471 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 321956002472 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 321956002473 Potassium binding sites [ion binding]; other site 321956002474 Cesium cation binding sites [ion binding]; other site 321956002475 lipoprotein signal peptidase; Provisional; Region: PRK14797 321956002476 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 321956002477 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 321956002478 RNA binding surface [nucleotide binding]; other site 321956002479 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 321956002480 active site 321956002481 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12838 321956002482 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 321956002483 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 321956002484 catalytic site [active] 321956002485 subunit interface [polypeptide binding]; other site 321956002486 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK12815 321956002487 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 321956002488 ATP-grasp domain; Region: ATP-grasp_4; cl17255 321956002489 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 321956002490 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 321956002491 ATP-grasp domain; Region: ATP-grasp_4; cl17255 321956002492 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 321956002493 IMP binding site; other site 321956002494 dimer interface [polypeptide binding]; other site 321956002495 interdomain contacts; other site 321956002496 partial ornithine binding site; other site 321956002497 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 321956002498 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 321956002499 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 321956002500 Domain of unknown function (DUF814); Region: DUF814; pfam05670 321956002501 EDD domain protein, DegV family; Region: DegV; TIGR00762 321956002502 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 321956002503 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 321956002504 EamA-like transporter family; Region: EamA; pfam00892 321956002505 EamA-like transporter family; Region: EamA; pfam00892 321956002506 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 321956002507 catalytic core [active] 321956002508 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 321956002509 FMN binding site [chemical binding]; other site 321956002510 dimer interface [polypeptide binding]; other site 321956002511 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 321956002512 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 321956002513 active site 321956002514 DNA binding site [nucleotide binding] 321956002515 Int/Topo IB signature motif; other site 321956002516 glycerate kinase; Region: TIGR00045 321956002517 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 321956002518 TPR repeat; Region: TPR_11; pfam13414 321956002519 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 321956002520 binding surface 321956002521 Sel1-like repeats; Region: SEL1; smart00671 321956002522 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 321956002523 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 321956002524 NADH(P)-binding; Region: NAD_binding_10; pfam13460 321956002525 NAD(P) binding site [chemical binding]; other site 321956002526 active site 321956002527 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 321956002528 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 321956002529 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 321956002530 M20 Peptidase Aminoacylase 1-like protein 2, amidohydrolase family; Region: M20_Acy1L2_like_2; cd09849 321956002531 metal binding site [ion binding]; metal-binding site 321956002532 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 321956002533 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 321956002534 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 321956002535 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 321956002536 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12838 321956002537 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 321956002538 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 321956002539 catalytic site [active] 321956002540 subunit interface [polypeptide binding]; other site 321956002541 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 321956002542 putative efflux protein, MATE family; Region: matE; TIGR00797 321956002543 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 321956002544 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 321956002545 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 321956002546 DNA binding residues [nucleotide binding] 321956002547 dimer interface [polypeptide binding]; other site 321956002548 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 321956002549 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 321956002550 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 321956002551 active site 321956002552 DNA binding site [nucleotide binding] 321956002553 Int/Topo IB signature motif; other site 321956002554 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 321956002555 Low molecular weight phosphatase family; Region: LMWPc; cd00115 321956002556 active site 321956002557 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 321956002558 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 321956002559 Walker A/P-loop; other site 321956002560 ATP binding site [chemical binding]; other site 321956002561 Q-loop/lid; other site 321956002562 ABC transporter signature motif; other site 321956002563 Walker B; other site 321956002564 D-loop; other site 321956002565 H-loop/switch region; other site 321956002566 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 321956002567 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 321956002568 non-specific DNA binding site [nucleotide binding]; other site 321956002569 salt bridge; other site 321956002570 sequence-specific DNA binding site [nucleotide binding]; other site 321956002571 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 321956002572 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 321956002573 similar to hypothetical protein 321956002574 Bacterial surface layer protein; Region: SLAP; pfam03217 321956002575 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 321956002576 active site 321956002577 similar to hypothetical protein 321956002578 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 321956002579 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 321956002580 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 321956002581 non-specific DNA binding site [nucleotide binding]; other site 321956002582 salt bridge; other site 321956002583 sequence-specific DNA binding site [nucleotide binding]; other site 321956002584 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 321956002585 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 321956002586 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 321956002587 Walker A/P-loop; other site 321956002588 ATP binding site [chemical binding]; other site 321956002589 Q-loop/lid; other site 321956002590 ABC transporter signature motif; other site 321956002591 Walker B; other site 321956002592 D-loop; other site 321956002593 H-loop/switch region; other site 321956002594 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 321956002595 Low molecular weight phosphatase family; Region: LMWPc; cd00115 321956002596 active site 321956002597 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 321956002598 active site 321956002599 DNA binding site [nucleotide binding] 321956002600 Int/Topo IB signature motif; other site 321956002601 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 321956002602 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 321956002603 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 321956002604 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 321956002605 DNA binding residues [nucleotide binding] 321956002606 dimer interface [polypeptide binding]; other site 321956002607 putative efflux protein, MATE family; Region: matE; TIGR00797 321956002608 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 321956002609 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 321956002610 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12838 321956002611 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 321956002612 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 321956002613 catalytic site [active] 321956002614 subunit interface [polypeptide binding]; other site 321956002615 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 321956002616 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 321956002617 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 321956002618 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 321956002619 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 321956002620 M20 Peptidase Aminoacylase 1-like protein 2, amidohydrolase family; Region: M20_Acy1L2_like_2; cd09849 321956002621 metal binding site [ion binding]; metal-binding site 321956002622 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 321956002623 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 321956002624 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 321956002625 NADH(P)-binding; Region: NAD_binding_10; pfam13460 321956002626 NAD(P) binding site [chemical binding]; other site 321956002627 active site 321956002628 Protein of unknown function C-terminus (DUF2399); Region: DUF2399; pfam09664 321956002629 TIGR02680 family protein; Region: TIGR02680 321956002630 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 321956002631 ABC transporter signature motif; other site 321956002632 Walker B; other site 321956002633 D-loop; other site 321956002634 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 321956002635 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 321956002636 NADH(P)-binding; Region: NAD_binding_10; pfam13460 321956002637 NAD(P) binding site [chemical binding]; other site 321956002638 putative active site [active] 321956002639 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 321956002640 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_1; cd12161 321956002641 putative ligand binding site [chemical binding]; other site 321956002642 putative NAD binding site [chemical binding]; other site 321956002643 catalytic site [active] 321956002644 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 321956002645 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 321956002646 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 321956002647 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 321956002648 Walker A/P-loop; other site 321956002649 ATP binding site [chemical binding]; other site 321956002650 Q-loop/lid; other site 321956002651 ABC transporter signature motif; other site 321956002652 Walker B; other site 321956002653 D-loop; other site 321956002654 H-loop/switch region; other site 321956002655 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 321956002656 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 321956002657 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 321956002658 Walker A/P-loop; other site 321956002659 ATP binding site [chemical binding]; other site 321956002660 Q-loop/lid; other site 321956002661 ABC transporter signature motif; other site 321956002662 Walker B; other site 321956002663 D-loop; other site 321956002664 H-loop/switch region; other site 321956002665 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 321956002666 active site residue [active] 321956002667 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 321956002668 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 321956002669 catalytic residues [active] 321956002670 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 321956002671 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 321956002672 Coenzyme A binding pocket [chemical binding]; other site 321956002673 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 321956002674 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 321956002675 motif II; other site 321956002676 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 321956002677 LytTr DNA-binding domain; Region: LytTR; smart00850 321956002678 Predicted oxidoreductase [General function prediction only]; Region: COG3573 321956002679 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 321956002680 active site 321956002681 catalytic site [active] 321956002682 substrate binding site [chemical binding]; other site 321956002683 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cl00630 321956002684 putative active site [active] 321956002685 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 321956002686 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 321956002687 Coenzyme A binding pocket [chemical binding]; other site 321956002688 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 321956002689 putative dimer interface [polypeptide binding]; other site 321956002690 catalytic triad [active] 321956002691 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 321956002692 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 321956002693 S-adenosylmethionine binding site [chemical binding]; other site 321956002694 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 321956002695 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 321956002696 putative substrate binding pocket [chemical binding]; other site 321956002697 AC domain interface; other site 321956002698 catalytic triad [active] 321956002699 AB domain interface; other site 321956002700 Protease prsW family; Region: PrsW-protease; pfam13367 321956002701 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 321956002702 NADP-dependent glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PLN00412 321956002703 tetrameric interface [polypeptide binding]; other site 321956002704 activator binding site; other site 321956002705 NADP binding site [chemical binding]; other site 321956002706 substrate binding site [chemical binding]; other site 321956002707 catalytic residues [active] 321956002708 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 321956002709 dimer interface [polypeptide binding]; other site 321956002710 conserved gate region; other site 321956002711 putative PBP binding loops; other site 321956002712 ABC-ATPase subunit interface; other site 321956002713 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 321956002714 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 321956002715 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 321956002716 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 321956002717 Walker A/P-loop; other site 321956002718 ATP binding site [chemical binding]; other site 321956002719 Q-loop/lid; other site 321956002720 ABC transporter signature motif; other site 321956002721 Walker B; other site 321956002722 D-loop; other site 321956002723 H-loop/switch region; other site 321956002724 Predicted transcriptional regulator [Transcription]; Region: COG1959 321956002725 Transcriptional regulator; Region: Rrf2; pfam02082 321956002726 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 321956002727 active site 321956002728 Peptidase family M48; Region: Peptidase_M48; cl12018 321956002729 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 321956002730 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 321956002731 pyridoxal 5'-phosphate binding site [chemical binding]; other site 321956002732 homodimer interface [polypeptide binding]; other site 321956002733 catalytic residue [active] 321956002734 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 321956002735 putative active site [active] 321956002736 catalytic triad [active] 321956002737 PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from...; Region: PA_C5a_like; cd02133 321956002738 putative integrin binding motif; other site 321956002739 PA/protease domain interface [polypeptide binding]; other site 321956002740 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 321956002741 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 321956002742 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 321956002743 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 321956002744 Bacterial surface layer protein; Region: SLAP; pfam03217 321956002745 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 321956002746 Coenzyme A binding pocket [chemical binding]; other site 321956002747 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 321956002748 dimer interface [polypeptide binding]; other site 321956002749 active site 321956002750 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 321956002751 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 321956002752 putative dimer interface [polypeptide binding]; other site 321956002753 putative anticodon binding site; other site 321956002754 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 321956002755 homodimer interface [polypeptide binding]; other site 321956002756 motif 1; other site 321956002757 motif 2; other site 321956002758 active site 321956002759 motif 3; other site 321956002760 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 321956002761 Transposase; Region: DDE_Tnp_ISL3; pfam01610 321956002762 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 321956002763 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 321956002764 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 321956002765 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 321956002766 CARDB; Region: CARDB; pfam07705 321956002767 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 321956002768 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 321956002769 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 321956002770 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 321956002771 HPr interaction site; other site 321956002772 glycerol kinase (GK) interaction site [polypeptide binding]; other site 321956002773 active site 321956002774 phosphorylation site [posttranslational modification] 321956002775 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 321956002776 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 321956002777 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 321956002778 maltose O-acetyltransferase; Provisional; Region: PRK10092 321956002779 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 321956002780 active site 321956002781 substrate binding site [chemical binding]; other site 321956002782 trimer interface [polypeptide binding]; other site 321956002783 CoA binding site [chemical binding]; other site 321956002784 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 321956002785 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 321956002786 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 321956002787 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 321956002788 Catalytic site [active] 321956002789 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 321956002790 peptidase T; Region: peptidase-T; TIGR01882 321956002791 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 321956002792 metal binding site [ion binding]; metal-binding site 321956002793 dimer interface [polypeptide binding]; other site 321956002794 Uncharacterized conserved protein [Function unknown]; Region: COG0327 321956002795 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 321956002796 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 321956002797 Family of unknown function (DUF633); Region: DUF633; pfam04816 321956002798 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 321956002799 putative active site [active] 321956002800 nucleotide binding site [chemical binding]; other site 321956002801 nudix motif; other site 321956002802 putative metal binding site [ion binding]; other site 321956002803 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 321956002804 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 321956002805 FMN-binding domain; Region: FMN_bind; cl01081 321956002806 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 321956002807 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 321956002808 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 321956002809 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 321956002810 cofactor binding site; other site 321956002811 DNA binding site [nucleotide binding] 321956002812 substrate interaction site [chemical binding]; other site 321956002813 Putative catalytic domain of type II restriction enzyme NgoFVII and similar proteins; Region: PLDc_RE_NgoFVII; cd09177 321956002814 PLD-like domain; Region: PLDc_2; pfam13091 321956002815 putative homodimer interface [polypeptide binding]; other site 321956002816 putative active site [active] 321956002817 catalytic site [active] 321956002818 Z1 domain; Region: Z1; pfam10593 321956002819 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 321956002820 additional DNA contacts [nucleotide binding]; other site 321956002821 mismatch recognition site; other site 321956002822 active site 321956002823 zinc binding site [ion binding]; other site 321956002824 DNA intercalation site [nucleotide binding]; other site 321956002825 HNH endonuclease; Region: HNH_2; pfam13391 321956002826 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 321956002827 AAA domain; Region: AAA_13; pfam13166 321956002828 Walker A/P-loop; other site 321956002829 ATP binding site [chemical binding]; other site 321956002830 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 321956002831 catalytic site [active] 321956002832 metal binding site [ion binding]; metal-binding site 321956002833 AAA ATPase domain; Region: AAA_16; pfam13191 321956002834 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 321956002835 Uncharacterized conserved protein [Function unknown]; Region: COG3410 321956002836 Uncharacterized conserved protein [Function unknown]; Region: COG1479 321956002837 Protein of unknown function DUF262; Region: DUF262; pfam03235 321956002838 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 321956002839 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 321956002840 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 321956002841 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 321956002842 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 321956002843 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 321956002844 Transposase; Region: DEDD_Tnp_IS110; pfam01548 321956002845 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 321956002846 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 321956002847 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 321956002848 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 321956002849 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 321956002850 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 321956002851 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 321956002852 DNA binding residues [nucleotide binding] 321956002853 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 321956002854 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 321956002855 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 321956002856 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 321956002857 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 321956002858 DNA binding residues [nucleotide binding] 321956002859 DNA primase; Validated; Region: dnaG; PRK05667 321956002860 CHC2 zinc finger; Region: zf-CHC2; pfam01807 321956002861 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 321956002862 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 321956002863 active site 321956002864 metal binding site [ion binding]; metal-binding site 321956002865 interdomain interaction site; other site 321956002866 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 321956002867 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 321956002868 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 321956002869 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 321956002870 motif 1; other site 321956002871 dimer interface [polypeptide binding]; other site 321956002872 active site 321956002873 motif 2; other site 321956002874 motif 3; other site 321956002875 DNA repair protein RecO; Region: reco; TIGR00613 321956002876 Recombination protein O N terminal; Region: RecO_N; pfam11967 321956002877 Recombination protein O C terminal; Region: RecO_C; pfam02565 321956002878 GTPase Era; Reviewed; Region: era; PRK00089 321956002879 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 321956002880 G1 box; other site 321956002881 GTP/Mg2+ binding site [chemical binding]; other site 321956002882 Switch I region; other site 321956002883 G2 box; other site 321956002884 Switch II region; other site 321956002885 G3 box; other site 321956002886 G4 box; other site 321956002887 G5 box; other site 321956002888 KH domain; Region: KH_2; pfam07650 321956002889 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 321956002890 active site 321956002891 catalytic motif [active] 321956002892 Zn binding site [ion binding]; other site 321956002893 metal-binding heat shock protein; Provisional; Region: PRK00016 321956002894 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 321956002895 PhoH-like protein; Region: PhoH; pfam02562 321956002896 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 321956002897 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 321956002898 Uncharacterized conserved protein [Function unknown]; Region: COG1284 321956002899 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 321956002900 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 321956002901 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 321956002902 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 321956002903 aromatic amino acid aminotransferase; Validated; Region: PRK07309 321956002904 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 321956002905 pyridoxal 5'-phosphate binding site [chemical binding]; other site 321956002906 homodimer interface [polypeptide binding]; other site 321956002907 catalytic residue [active] 321956002908 diaminopimelate decarboxylase; Region: lysA; TIGR01048 321956002909 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 321956002910 active site 321956002911 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 321956002912 substrate binding site [chemical binding]; other site 321956002913 catalytic residues [active] 321956002914 dimer interface [polypeptide binding]; other site 321956002915 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 321956002916 active site 321956002917 catalytic residues [active] 321956002918 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 321956002919 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 321956002920 Walker A motif; other site 321956002921 ATP binding site [chemical binding]; other site 321956002922 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 321956002923 Walker B motif; other site 321956002924 arginine finger; other site 321956002925 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 321956002926 ATP-dependent protease subunit HslV; Provisional; Region: PRK05456 321956002927 active site 321956002928 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 321956002929 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 321956002930 active site 321956002931 DNA binding site [nucleotide binding] 321956002932 Int/Topo IB signature motif; other site 321956002933 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 321956002934 Glucose inhibited division protein A; Region: GIDA; pfam01134 321956002935 DNA topoisomerase I; Validated; Region: PRK05582 321956002936 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 321956002937 active site 321956002938 interdomain interaction site; other site 321956002939 putative metal-binding site [ion binding]; other site 321956002940 nucleotide binding site [chemical binding]; other site 321956002941 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 321956002942 domain I; other site 321956002943 DNA binding groove [nucleotide binding] 321956002944 phosphate binding site [ion binding]; other site 321956002945 domain II; other site 321956002946 domain III; other site 321956002947 nucleotide binding site [chemical binding]; other site 321956002948 catalytic site [active] 321956002949 domain IV; other site 321956002950 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 321956002951 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 321956002952 DNA protecting protein DprA; Region: dprA; TIGR00732 321956002953 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 321956002954 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 321956002955 RNA/DNA hybrid binding site [nucleotide binding]; other site 321956002956 active site 321956002957 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 321956002958 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 321956002959 GTP/Mg2+ binding site [chemical binding]; other site 321956002960 G4 box; other site 321956002961 G5 box; other site 321956002962 G1 box; other site 321956002963 Switch I region; other site 321956002964 G2 box; other site 321956002965 G3 box; other site 321956002966 Switch II region; other site 321956002967 hypothetical protein; Provisional; Region: PRK13672 321956002968 EDD domain protein, DegV family; Region: DegV; TIGR00762 321956002969 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 321956002970 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 321956002971 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 321956002972 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 321956002973 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 321956002974 active site 321956002975 NTP binding site [chemical binding]; other site 321956002976 metal binding triad [ion binding]; metal-binding site 321956002977 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 321956002978 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 321956002979 Uncharacterized conserved protein [Function unknown]; Region: COG1284 321956002980 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 321956002981 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 321956002982 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 321956002983 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 321956002984 nucleotidyl binding site; other site 321956002985 metal binding site [ion binding]; metal-binding site 321956002986 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 321956002987 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 321956002988 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 321956002989 Walker A/P-loop; other site 321956002990 ATP binding site [chemical binding]; other site 321956002991 Q-loop/lid; other site 321956002992 ABC transporter signature motif; other site 321956002993 Walker B; other site 321956002994 D-loop; other site 321956002995 H-loop/switch region; other site 321956002996 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 321956002997 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 321956002998 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 321956002999 Walker A/P-loop; other site 321956003000 ATP binding site [chemical binding]; other site 321956003001 Q-loop/lid; other site 321956003002 ABC transporter signature motif; other site 321956003003 Walker B; other site 321956003004 D-loop; other site 321956003005 H-loop/switch region; other site 321956003006 Transcriptional regulator [Transcription]; Region: LysR; COG0583 321956003007 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 321956003008 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 321956003009 dimerization interface [polypeptide binding]; other site 321956003010 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 321956003011 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 321956003012 active site 321956003013 EDD domain protein, DegV family; Region: DegV; TIGR00762 321956003014 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 321956003015 enolase; Provisional; Region: eno; PRK00077 321956003016 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 321956003017 dimer interface [polypeptide binding]; other site 321956003018 metal binding site [ion binding]; metal-binding site 321956003019 substrate binding pocket [chemical binding]; other site 321956003020 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 321956003021 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 321956003022 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 321956003023 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 321956003024 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 321956003025 Walker A/P-loop; other site 321956003026 ATP binding site [chemical binding]; other site 321956003027 Q-loop/lid; other site 321956003028 ABC transporter signature motif; other site 321956003029 Walker B; other site 321956003030 D-loop; other site 321956003031 H-loop/switch region; other site 321956003032 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 321956003033 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 321956003034 substrate binding pocket [chemical binding]; other site 321956003035 membrane-bound complex binding site; other site 321956003036 hinge residues; other site 321956003037 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 321956003038 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 321956003039 dimer interface [polypeptide binding]; other site 321956003040 conserved gate region; other site 321956003041 putative PBP binding loops; other site 321956003042 ABC-ATPase subunit interface; other site 321956003043 Transcriptional regulator [Transcription]; Region: LysR; COG0583 321956003044 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 321956003045 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 321956003046 dimerization interface [polypeptide binding]; other site 321956003047 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 321956003048 plasma-membrane proton-efflux P-type ATPase; Region: ATPase-IIIA_H; TIGR01647 321956003049 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 321956003050 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 321956003051 motif I; other site 321956003052 motif II; other site 321956003053 Domain of unknown function DUF20; Region: UPF0118; pfam01594 321956003054 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 321956003055 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 321956003056 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 321956003057 homodimer interface [polypeptide binding]; other site 321956003058 substrate-cofactor binding pocket; other site 321956003059 catalytic residue [active] 321956003060 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 321956003061 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 321956003062 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 321956003063 dimerization interface [polypeptide binding]; other site 321956003064 putative DNA binding site [nucleotide binding]; other site 321956003065 putative Zn2+ binding site [ion binding]; other site 321956003066 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 321956003067 active site 321956003068 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 321956003069 DHH family; Region: DHH; pfam01368 321956003070 DHHA1 domain; Region: DHHA1; pfam02272 321956003071 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 321956003072 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 321956003073 active site 321956003074 catalytic site [active] 321956003075 GTP-binding protein LepA; Provisional; Region: PRK05433 321956003076 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 321956003077 G1 box; other site 321956003078 putative GEF interaction site [polypeptide binding]; other site 321956003079 GTP/Mg2+ binding site [chemical binding]; other site 321956003080 Switch I region; other site 321956003081 G2 box; other site 321956003082 G3 box; other site 321956003083 Switch II region; other site 321956003084 G4 box; other site 321956003085 G5 box; other site 321956003086 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 321956003087 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 321956003088 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 321956003089 chaperone protein DnaJ; Provisional; Region: PRK14276 321956003090 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 321956003091 HSP70 interaction site [polypeptide binding]; other site 321956003092 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 321956003093 substrate binding site [polypeptide binding]; other site 321956003094 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 321956003095 Zn binding sites [ion binding]; other site 321956003096 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 321956003097 dimer interface [polypeptide binding]; other site 321956003098 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 321956003099 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 321956003100 nucleotide binding site [chemical binding]; other site 321956003101 NEF interaction site [polypeptide binding]; other site 321956003102 SBD interface [polypeptide binding]; other site 321956003103 GrpE; Region: GrpE; pfam01025 321956003104 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 321956003105 dimer interface [polypeptide binding]; other site 321956003106 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 321956003107 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 321956003108 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 321956003109 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 321956003110 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 321956003111 active site 321956003112 Riboflavin kinase; Region: Flavokinase; smart00904 321956003113 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 321956003114 FAD binding site [chemical binding]; other site 321956003115 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 321956003116 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 321956003117 THF binding site; other site 321956003118 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 321956003119 substrate binding site [chemical binding]; other site 321956003120 THF binding site; other site 321956003121 zinc-binding site [ion binding]; other site 321956003122 S-ribosylhomocysteinase; Provisional; Region: PRK02260 321956003123 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 321956003124 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 321956003125 dimer interface [polypeptide binding]; other site 321956003126 pyridoxal 5'-phosphate binding site [chemical binding]; other site 321956003127 catalytic residue [active] 321956003128 cystathionine beta-lyase; Provisional; Region: PRK07671 321956003129 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 321956003130 homodimer interface [polypeptide binding]; other site 321956003131 substrate-cofactor binding pocket; other site 321956003132 pyridoxal 5'-phosphate binding site [chemical binding]; other site 321956003133 catalytic residue [active] 321956003134 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 321956003135 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 321956003136 RNA binding site [nucleotide binding]; other site 321956003137 active site 321956003138 ribosome-binding factor A; Provisional; Region: PRK13818 321956003139 translation initiation factor IF-2; Validated; Region: infB; PRK05306 321956003140 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 321956003141 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 321956003142 G1 box; other site 321956003143 putative GEF interaction site [polypeptide binding]; other site 321956003144 GTP/Mg2+ binding site [chemical binding]; other site 321956003145 Switch I region; other site 321956003146 G2 box; other site 321956003147 G3 box; other site 321956003148 Switch II region; other site 321956003149 G4 box; other site 321956003150 G5 box; other site 321956003151 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 321956003152 Translation-initiation factor 2; Region: IF-2; pfam11987 321956003153 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 321956003154 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 321956003155 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 321956003156 putative RNA binding cleft [nucleotide binding]; other site 321956003157 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 321956003158 NusA N-terminal domain; Region: NusA_N; pfam08529 321956003159 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 321956003160 RNA binding site [nucleotide binding]; other site 321956003161 homodimer interface [polypeptide binding]; other site 321956003162 NusA-like KH domain; Region: KH_5; pfam13184 321956003163 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 321956003164 G-X-X-G motif; other site 321956003165 ribosome maturation protein RimP; Reviewed; Region: PRK00092 321956003166 Sm and related proteins; Region: Sm_like; cl00259 321956003167 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 321956003168 putative oligomer interface [polypeptide binding]; other site 321956003169 putative RNA binding site [nucleotide binding]; other site 321956003170 DNA polymerase III PolC; Validated; Region: polC; PRK00448 321956003171 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 321956003172 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 321956003173 generic binding surface II; other site 321956003174 generic binding surface I; other site 321956003175 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 321956003176 active site 321956003177 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 321956003178 active site 321956003179 catalytic site [active] 321956003180 substrate binding site [chemical binding]; other site 321956003181 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 321956003182 prolyl-tRNA synthetase; Provisional; Region: PRK09194 321956003183 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 321956003184 dimer interface [polypeptide binding]; other site 321956003185 motif 1; other site 321956003186 active site 321956003187 motif 2; other site 321956003188 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 321956003189 putative deacylase active site [active] 321956003190 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 321956003191 active site 321956003192 motif 3; other site 321956003193 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 321956003194 anticodon binding site; other site 321956003195 RIP metalloprotease RseP; Region: TIGR00054 321956003196 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 321956003197 active site 321956003198 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 321956003199 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 321956003200 protein binding site [polypeptide binding]; other site 321956003201 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 321956003202 putative substrate binding region [chemical binding]; other site 321956003203 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 321956003204 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 321956003205 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 321956003206 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 321956003207 catalytic residue [active] 321956003208 putative FPP diphosphate binding site; other site 321956003209 putative FPP binding hydrophobic cleft; other site 321956003210 dimer interface [polypeptide binding]; other site 321956003211 putative IPP diphosphate binding site; other site 321956003212 ribosome recycling factor; Reviewed; Region: frr; PRK00083 321956003213 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 321956003214 hinge region; other site 321956003215 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 321956003216 putative nucleotide binding site [chemical binding]; other site 321956003217 uridine monophosphate binding site [chemical binding]; other site 321956003218 homohexameric interface [polypeptide binding]; other site 321956003219 elongation factor Ts; Provisional; Region: tsf; PRK09377 321956003220 Elongation factor TS; Region: EF_TS; pfam00889 321956003221 Elongation factor TS; Region: EF_TS; pfam00889 321956003222 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 321956003223 rRNA interaction site [nucleotide binding]; other site 321956003224 S8 interaction site; other site 321956003225 putative laminin-1 binding site; other site 321956003226 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 321956003227 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 321956003228 S-adenosylmethionine binding site [chemical binding]; other site 321956003229 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 321956003230 GIY-YIG motif/motif A; other site 321956003231 putative active site [active] 321956003232 putative metal binding site [ion binding]; other site 321956003233 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 321956003234 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 321956003235 putative acyl-acceptor binding pocket; other site 321956003236 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 321956003237 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 321956003238 aspartate kinase; Reviewed; Region: PRK09034 321956003239 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 321956003240 putative catalytic residues [active] 321956003241 putative nucleotide binding site [chemical binding]; other site 321956003242 putative aspartate binding site [chemical binding]; other site 321956003243 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 321956003244 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 321956003245 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 321956003246 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 321956003247 hypothetical protein; Provisional; Region: PRK04435 321956003248 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 321956003249 DNA-binding interface [nucleotide binding]; DNA binding site 321956003250 C-terminal ACT domain of a small (; 147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains; Region: ACT_PheB-BS; cd04888 321956003251 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 321956003252 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 321956003253 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 321956003254 Walker A/P-loop; other site 321956003255 ATP binding site [chemical binding]; other site 321956003256 Q-loop/lid; other site 321956003257 ABC transporter signature motif; other site 321956003258 Walker B; other site 321956003259 D-loop; other site 321956003260 H-loop/switch region; other site 321956003261 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 321956003262 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 321956003263 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 321956003264 Walker A/P-loop; other site 321956003265 ATP binding site [chemical binding]; other site 321956003266 Q-loop/lid; other site 321956003267 ABC transporter signature motif; other site 321956003268 Walker B; other site 321956003269 D-loop; other site 321956003270 H-loop/switch region; other site 321956003271 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 321956003272 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 321956003273 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 321956003274 putative DNA binding site [nucleotide binding]; other site 321956003275 LexA repressor; Validated; Region: PRK00215 321956003276 putative Zn2+ binding site [ion binding]; other site 321956003277 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 321956003278 Catalytic site [active] 321956003279 Sugar transport protein; Region: Sugar_transport; pfam06800 321956003280 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 321956003281 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 321956003282 substrate binding pocket [chemical binding]; other site 321956003283 membrane-bound complex binding site; other site 321956003284 hinge residues; other site 321956003285 CRISPR-associated helicase Cas3, subtype CYANO; Region: cas3_cyano; TIGR03158 321956003286 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 321956003287 ATP binding site [chemical binding]; other site 321956003288 putative Mg++ binding site [ion binding]; other site 321956003289 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 321956003290 nucleotide binding region [chemical binding]; other site 321956003291 ATP-binding site [chemical binding]; other site 321956003292 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 321956003293 AAA ATPase domain; Region: AAA_16; pfam13191 321956003294 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 321956003295 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 321956003296 putative active site [active] 321956003297 putative metal binding site [ion binding]; other site 321956003298 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 321956003299 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 321956003300 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 321956003301 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 321956003302 RimM N-terminal domain; Region: RimM; pfam01782 321956003303 PRC-barrel domain; Region: PRC; pfam05239 321956003304 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 321956003305 signal recognition particle protein; Provisional; Region: PRK10867 321956003306 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 321956003307 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 321956003308 P loop; other site 321956003309 GTP binding site [chemical binding]; other site 321956003310 Signal peptide binding domain; Region: SRP_SPB; pfam02978 321956003311 putative DNA-binding protein; Validated; Region: PRK00118 321956003312 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 321956003313 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 321956003314 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 321956003315 P loop; other site 321956003316 GTP binding site [chemical binding]; other site 321956003317 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 321956003318 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 321956003319 Walker A/P-loop; other site 321956003320 ATP binding site [chemical binding]; other site 321956003321 Q-loop/lid; other site 321956003322 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 321956003323 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 321956003324 Q-loop/lid; other site 321956003325 ABC transporter signature motif; other site 321956003326 Walker B; other site 321956003327 D-loop; other site 321956003328 H-loop/switch region; other site 321956003329 ribonuclease III; Reviewed; Region: rnc; PRK00102 321956003330 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 321956003331 dimerization interface [polypeptide binding]; other site 321956003332 active site 321956003333 metal binding site [ion binding]; metal-binding site 321956003334 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 321956003335 dsRNA binding site [nucleotide binding]; other site 321956003336 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 321956003337 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 321956003338 peptide binding site [polypeptide binding]; other site 321956003339 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 321956003340 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 321956003341 peptide binding site [polypeptide binding]; other site 321956003342 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 321956003343 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 321956003344 dimer interface [polypeptide binding]; other site 321956003345 conserved gate region; other site 321956003346 putative PBP binding loops; other site 321956003347 ABC-ATPase subunit interface; other site 321956003348 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 321956003349 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 321956003350 Walker A/P-loop; other site 321956003351 ATP binding site [chemical binding]; other site 321956003352 Q-loop/lid; other site 321956003353 ABC transporter signature motif; other site 321956003354 Walker B; other site 321956003355 D-loop; other site 321956003356 H-loop/switch region; other site 321956003357 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 321956003358 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 321956003359 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 321956003360 Walker A/P-loop; other site 321956003361 ATP binding site [chemical binding]; other site 321956003362 Q-loop/lid; other site 321956003363 ABC transporter signature motif; other site 321956003364 Walker B; other site 321956003365 D-loop; other site 321956003366 H-loop/switch region; other site 321956003367 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 321956003368 acyl carrier protein; Provisional; Region: acpP; PRK00982 321956003369 putative phosphate acyltransferase; Provisional; Region: PRK05331 321956003370 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 321956003371 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 321956003372 ssDNA binding site; other site 321956003373 generic binding surface II; other site 321956003374 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 321956003375 ATP binding site [chemical binding]; other site 321956003376 putative Mg++ binding site [ion binding]; other site 321956003377 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 321956003378 nucleotide binding region [chemical binding]; other site 321956003379 ATP-binding site [chemical binding]; other site 321956003380 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 321956003381 DAK2 domain; Region: Dak2; pfam02734 321956003382 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 321956003383 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 321956003384 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 321956003385 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 321956003386 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 321956003387 Walker A/P-loop; other site 321956003388 ATP binding site [chemical binding]; other site 321956003389 Q-loop/lid; other site 321956003390 ABC transporter signature motif; other site 321956003391 Walker B; other site 321956003392 D-loop; other site 321956003393 H-loop/switch region; other site 321956003394 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 321956003395 Thiamine pyrophosphokinase; Region: TPK; cd07995 321956003396 active site 321956003397 dimerization interface [polypeptide binding]; other site 321956003398 thiamine binding site [chemical binding]; other site 321956003399 GTPase RsgA; Reviewed; Region: PRK00098 321956003400 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 321956003401 RNA binding site [nucleotide binding]; other site 321956003402 homodimer interface [polypeptide binding]; other site 321956003403 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 321956003404 GTPase/Zn-binding domain interface [polypeptide binding]; other site 321956003405 GTP/Mg2+ binding site [chemical binding]; other site 321956003406 G4 box; other site 321956003407 G1 box; other site 321956003408 Switch I region; other site 321956003409 G2 box; other site 321956003410 G3 box; other site 321956003411 Switch II region; other site 321956003412 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 321956003413 Catalytic domain of Protein Kinases; Region: PKc; cd00180 321956003414 active site 321956003415 ATP binding site [chemical binding]; other site 321956003416 substrate binding site [chemical binding]; other site 321956003417 activation loop (A-loop); other site 321956003418 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 321956003419 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 321956003420 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 321956003421 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 321956003422 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 321956003423 active site 321956003424 16S rRNA methyltransferase B; Provisional; Region: PRK14902 321956003425 NusB family; Region: NusB; pfam01029 321956003426 putative RNA binding site [nucleotide binding]; other site 321956003427 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 321956003428 S-adenosylmethionine binding site [chemical binding]; other site 321956003429 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 321956003430 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 321956003431 putative active site [active] 321956003432 substrate binding site [chemical binding]; other site 321956003433 putative cosubstrate binding site; other site 321956003434 catalytic site [active] 321956003435 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 321956003436 substrate binding site [chemical binding]; other site 321956003437 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 321956003438 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 321956003439 ATP binding site [chemical binding]; other site 321956003440 putative Mg++ binding site [ion binding]; other site 321956003441 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 321956003442 nucleotide binding region [chemical binding]; other site 321956003443 ATP-binding site [chemical binding]; other site 321956003444 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 321956003445 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 321956003446 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 321956003447 catalytic site [active] 321956003448 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 321956003449 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 321956003450 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 321956003451 Walker A/P-loop; other site 321956003452 ATP binding site [chemical binding]; other site 321956003453 Q-loop/lid; other site 321956003454 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 321956003455 ABC transporter signature motif; other site 321956003456 Walker B; other site 321956003457 D-loop; other site 321956003458 H-loop/switch region; other site 321956003459 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 321956003460 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 321956003461 RNA binding surface [nucleotide binding]; other site 321956003462 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 321956003463 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 321956003464 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 321956003465 substrate binding pocket [chemical binding]; other site 321956003466 chain length determination region; other site 321956003467 substrate-Mg2+ binding site; other site 321956003468 catalytic residues [active] 321956003469 aspartate-rich region 1; other site 321956003470 active site lid residues [active] 321956003471 aspartate-rich region 2; other site 321956003472 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 321956003473 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 321956003474 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 321956003475 generic binding surface II; other site 321956003476 generic binding surface I; other site 321956003477 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 321956003478 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 321956003479 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 321956003480 homodimer interface [polypeptide binding]; other site 321956003481 NADP binding site [chemical binding]; other site 321956003482 substrate binding site [chemical binding]; other site 321956003483 transcription antitermination factor NusB; Region: nusB; TIGR01951 321956003484 Asp23 family; Region: Asp23; pfam03780 321956003485 elongation factor P; Validated; Region: PRK00529 321956003486 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 321956003487 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 321956003488 RNA binding site [nucleotide binding]; other site 321956003489 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 321956003490 RNA binding site [nucleotide binding]; other site 321956003491 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 321956003492 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 321956003493 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 321956003494 active site 321956003495 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 321956003496 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 321956003497 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 321956003498 ArsC family; Region: ArsC; pfam03960 321956003499 putative ArsC-like catalytic residues; other site 321956003500 putative TRX-like catalytic residues [active] 321956003501 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 321956003502 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 321956003503 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 321956003504 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 321956003505 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 321956003506 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 321956003507 purine monophosphate binding site [chemical binding]; other site 321956003508 dimer interface [polypeptide binding]; other site 321956003509 putative catalytic residues [active] 321956003510 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 321956003511 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 321956003512 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 321956003513 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 321956003514 active site 321956003515 substrate binding site [chemical binding]; other site 321956003516 cosubstrate binding site; other site 321956003517 catalytic site [active] 321956003518 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 321956003519 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 321956003520 dimerization interface [polypeptide binding]; other site 321956003521 putative ATP binding site [chemical binding]; other site 321956003522 amidophosphoribosyltransferase; Provisional; Region: PRK07272 321956003523 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 321956003524 active site 321956003525 tetramer interface [polypeptide binding]; other site 321956003526 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 321956003527 active site 321956003528 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 321956003529 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 321956003530 dimerization interface [polypeptide binding]; other site 321956003531 ATP binding site [chemical binding]; other site 321956003532 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 321956003533 dimerization interface [polypeptide binding]; other site 321956003534 ATP binding site [chemical binding]; other site 321956003535 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 321956003536 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 321956003537 putative active site [active] 321956003538 catalytic triad [active] 321956003539 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 321956003540 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 321956003541 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 321956003542 ATP binding site [chemical binding]; other site 321956003543 active site 321956003544 substrate binding site [chemical binding]; other site 321956003545 adenylosuccinate lyase; Provisional; Region: PRK07492 321956003546 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 321956003547 tetramer interface [polypeptide binding]; other site 321956003548 active site 321956003549 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 321956003550 ATP-grasp domain; Region: ATP-grasp; pfam02222 321956003551 AIR carboxylase; Region: AIRC; pfam00731 321956003552 Major Facilitator Superfamily; Region: MFS_1; pfam07690 321956003553 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 321956003554 putative substrate translocation pore; other site 321956003555 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 321956003556 DNA topoisomerase III; Provisional; Region: PRK07726 321956003557 active site 321956003558 putative interdomain interaction site [polypeptide binding]; other site 321956003559 putative metal-binding site [ion binding]; other site 321956003560 putative nucleotide binding site [chemical binding]; other site 321956003561 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 321956003562 domain I; other site 321956003563 DNA binding groove [nucleotide binding] 321956003564 phosphate binding site [ion binding]; other site 321956003565 domain II; other site 321956003566 domain III; other site 321956003567 nucleotide binding site [chemical binding]; other site 321956003568 catalytic site [active] 321956003569 domain IV; other site 321956003570 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 321956003571 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 321956003572 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; smart00940 321956003573 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 321956003574 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 321956003575 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 321956003576 putative substrate translocation pore; other site 321956003577 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 321956003578 proposed active site lysine [active] 321956003579 conserved cys residue [active] 321956003580 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 321956003581 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 321956003582 dimer interface [polypeptide binding]; other site 321956003583 pyridoxal 5'-phosphate binding site [chemical binding]; other site 321956003584 catalytic residue [active] 321956003585 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 321956003586 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 321956003587 S-adenosylmethionine binding site [chemical binding]; other site 321956003588 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 321956003589 adenosine deaminase; Provisional; Region: PRK09358 321956003590 active site 321956003591 The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p; Region: HIRAN; smart00910 321956003592 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 321956003593 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 321956003594 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 321956003595 Transposase; Region: DEDD_Tnp_IS110; pfam01548 321956003596 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 321956003597 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 321956003598 Major Facilitator Superfamily; Region: MFS_1; pfam07690 321956003599 putative substrate translocation pore; other site 321956003600 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 321956003601 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 321956003602 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 321956003603 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 321956003604 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 321956003605 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 321956003606 active site residue [active] 321956003607 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 321956003608 Rhomboid family; Region: Rhomboid; pfam01694 321956003609 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 321956003610 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 321956003611 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 321956003612 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 321956003613 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 321956003614 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 321956003615 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 321956003616 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 321956003617 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 321956003618 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 321956003619 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 321956003620 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 321956003621 putative tRNA-binding site [nucleotide binding]; other site 321956003622 B3/4 domain; Region: B3_4; pfam03483 321956003623 tRNA synthetase B5 domain; Region: B5; smart00874 321956003624 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 321956003625 dimer interface [polypeptide binding]; other site 321956003626 motif 1; other site 321956003627 motif 3; other site 321956003628 motif 2; other site 321956003629 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 321956003630 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 321956003631 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 321956003632 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 321956003633 dimer interface [polypeptide binding]; other site 321956003634 motif 1; other site 321956003635 active site 321956003636 motif 2; other site 321956003637 motif 3; other site 321956003638 Predicted transcriptional regulators [Transcription]; Region: COG1733 321956003639 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 321956003640 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 321956003641 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 321956003642 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 321956003643 Acylphosphatase; Region: Acylphosphatase; pfam00708 321956003644 OxaA-like protein precursor; Provisional; Region: PRK02463 321956003645 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 321956003646 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 321956003647 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 321956003648 dimerization interface [polypeptide binding]; other site 321956003649 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 321956003650 dimer interface [polypeptide binding]; other site 321956003651 phosphorylation site [posttranslational modification] 321956003652 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 321956003653 ATP binding site [chemical binding]; other site 321956003654 Mg2+ binding site [ion binding]; other site 321956003655 G-X-G motif; other site 321956003656 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 321956003657 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 321956003658 active site 321956003659 phosphorylation site [posttranslational modification] 321956003660 intermolecular recognition site; other site 321956003661 dimerization interface [polypeptide binding]; other site 321956003662 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 321956003663 DNA binding site [nucleotide binding] 321956003664 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 321956003665 hypothetical protein; Provisional; Region: PRK13670 321956003666 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 321956003667 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 321956003668 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 321956003669 Zn2+ binding site [ion binding]; other site 321956003670 Mg2+ binding site [ion binding]; other site 321956003671 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 321956003672 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 321956003673 active site 321956003674 (T/H)XGH motif; other site 321956003675 GTPase YqeH; Provisional; Region: PRK13796 321956003676 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 321956003677 GTP/Mg2+ binding site [chemical binding]; other site 321956003678 G4 box; other site 321956003679 G5 box; other site 321956003680 G1 box; other site 321956003681 Switch I region; other site 321956003682 G2 box; other site 321956003683 G3 box; other site 321956003684 Switch II region; other site 321956003685 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 321956003686 23S rRNA binding site [nucleotide binding]; other site 321956003687 L21 binding site [polypeptide binding]; other site 321956003688 L13 binding site [polypeptide binding]; other site 321956003689 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 321956003690 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 321956003691 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 321956003692 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 321956003693 Archaeal ATPase; Region: Arch_ATPase; pfam01637 321956003694 AAA ATPase domain; Region: AAA_16; pfam13191 321956003695 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 321956003696 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 321956003697 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 321956003698 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 321956003699 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 321956003700 active site 321956003701 dimer interface [polypeptide binding]; other site 321956003702 motif 1; other site 321956003703 motif 2; other site 321956003704 motif 3; other site 321956003705 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 321956003706 anticodon binding site; other site 321956003707 primosomal protein DnaI; Reviewed; Region: PRK08939 321956003708 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 321956003709 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 321956003710 Walker A motif; other site 321956003711 ATP binding site [chemical binding]; other site 321956003712 Walker B motif; other site 321956003713 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 321956003714 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 321956003715 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 321956003716 ATP cone domain; Region: ATP-cone; pfam03477 321956003717 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 321956003718 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 321956003719 CoA-binding site [chemical binding]; other site 321956003720 ATP-binding [chemical binding]; other site 321956003721 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 321956003722 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 321956003723 DNA binding site [nucleotide binding] 321956003724 catalytic residue [active] 321956003725 H2TH interface [polypeptide binding]; other site 321956003726 putative catalytic residues [active] 321956003727 turnover-facilitating residue; other site 321956003728 intercalation triad [nucleotide binding]; other site 321956003729 8OG recognition residue [nucleotide binding]; other site 321956003730 putative reading head residues; other site 321956003731 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 321956003732 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 321956003733 DNA polymerase I; Provisional; Region: PRK05755 321956003734 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 321956003735 active site 321956003736 metal binding site 1 [ion binding]; metal-binding site 321956003737 putative 5' ssDNA interaction site; other site 321956003738 metal binding site 3; metal-binding site 321956003739 metal binding site 2 [ion binding]; metal-binding site 321956003740 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 321956003741 putative DNA binding site [nucleotide binding]; other site 321956003742 putative metal binding site [ion binding]; other site 321956003743 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 321956003744 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 321956003745 active site 321956003746 DNA binding site [nucleotide binding] 321956003747 catalytic site [active] 321956003748 MobA/MobL family; Region: MobA_MobL; pfam03389 321956003749 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 321956003750 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 321956003751 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 321956003752 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 321956003753 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 321956003754 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 321956003755 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 321956003756 putative tRNA-binding site [nucleotide binding]; other site 321956003757 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 321956003758 catalytic residues [active] 321956003759 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 321956003760 S-adenosylmethionine binding site [chemical binding]; other site 321956003761 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 321956003762 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 321956003763 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 321956003764 Walker A/P-loop; other site 321956003765 ATP binding site [chemical binding]; other site 321956003766 Q-loop/lid; other site 321956003767 ABC transporter signature motif; other site 321956003768 Walker B; other site 321956003769 D-loop; other site 321956003770 H-loop/switch region; other site 321956003771 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 321956003772 HIT family signature motif; other site 321956003773 catalytic residue [active] 321956003774 YtxH-like protein; Region: YtxH; pfam12732 321956003775 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 321956003776 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 321956003777 heterodimer interface [polypeptide binding]; other site 321956003778 active site 321956003779 FMN binding site [chemical binding]; other site 321956003780 homodimer interface [polypeptide binding]; other site 321956003781 substrate binding site [chemical binding]; other site 321956003782 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 321956003783 active site 321956003784 dimer interface [polypeptide binding]; other site 321956003785 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 321956003786 active site 321956003787 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 321956003788 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 321956003789 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 321956003790 ADP binding site [chemical binding]; other site 321956003791 magnesium binding site [ion binding]; other site 321956003792 putative shikimate binding site; other site 321956003793 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 321956003794 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 321956003795 generic binding surface II; other site 321956003796 generic binding surface I; other site 321956003797 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 321956003798 Zn2+ binding site [ion binding]; other site 321956003799 Mg2+ binding site [ion binding]; other site 321956003800 P-loop containing region of AAA domain; Region: AAA_29; cl17516 321956003801 AAA domain; Region: AAA_23; pfam13476 321956003802 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 321956003803 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 321956003804 active site 321956003805 metal binding site [ion binding]; metal-binding site 321956003806 hypothetical protein; Provisional; Region: PRK13676 321956003807 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 321956003808 Transglycosylase; Region: Transgly; pfam00912 321956003809 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 321956003810 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 321956003811 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 321956003812 active site 321956003813 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 321956003814 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 321956003815 intersubunit interface [polypeptide binding]; other site 321956003816 active site 321956003817 zinc binding site [ion binding]; other site 321956003818 Na+ binding site [ion binding]; other site 321956003819 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 321956003820 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 321956003821 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 surface protein substrate is...; Region: Sortase; cl09098 321956003822 active site 321956003823 Rib/alpha-like repeat; Region: Rib; pfam08428 321956003824 Rib/alpha-like repeat; Region: Rib; cl07159 321956003825 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 321956003826 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 321956003827 putative substrate binding site [chemical binding]; other site 321956003828 putative ATP binding site [chemical binding]; other site 321956003829 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 321956003830 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 321956003831 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 321956003832 stage V sporulation protein B; Region: spore_V_B; TIGR02900 321956003833 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 321956003834 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 321956003835 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 321956003836 HIGH motif; other site 321956003837 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 321956003838 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 321956003839 active site 321956003840 KMSKS motif; other site 321956003841 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 321956003842 tRNA binding surface [nucleotide binding]; other site 321956003843 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 321956003844 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 321956003845 active site 321956003846 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 321956003847 Major Facilitator Superfamily; Region: MFS_1; pfam07690 321956003848 putative substrate translocation pore; other site 321956003849 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 321956003850 S-adenosylmethionine synthetase; Validated; Region: PRK05250 321956003851 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 321956003852 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 321956003853 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 321956003854 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 321956003855 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 321956003856 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 321956003857 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 321956003858 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 321956003859 Protein of unknown function (DUF1461); Region: DUF1461; pfam07314 321956003860 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 321956003861 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 321956003862 active site 321956003863 motif I; other site 321956003864 motif II; other site 321956003865 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 321956003866 Protein of unknown function (DUF1027); Region: DUF1027; pfam06265 321956003867 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 321956003868 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 321956003869 active site 321956003870 metal binding site [ion binding]; metal-binding site 321956003871 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 321956003872 catabolite control protein A; Region: ccpA; TIGR01481 321956003873 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 321956003874 DNA binding site [nucleotide binding] 321956003875 domain linker motif; other site 321956003876 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 321956003877 dimerization interface [polypeptide binding]; other site 321956003878 effector binding site; other site 321956003879 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 321956003880 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 321956003881 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 321956003882 active site 321956003883 Bacterial protein of unknown function (DUF948); Region: DUF948; pfam06103 321956003884 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 321956003885 Mechanosensitive ion channel; Region: MS_channel; pfam00924 321956003886 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 321956003887 active site 321956003888 dimerization interface [polypeptide binding]; other site 321956003889 Protein of unknown function (DUF2507); Region: DUF2507; pfam10702 321956003890 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 321956003891 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 321956003892 catalytic residues [active] 321956003893 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 321956003894 MutS domain III; Region: MutS_III; pfam05192 321956003895 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 321956003896 Walker A/P-loop; other site 321956003897 ATP binding site [chemical binding]; other site 321956003898 Q-loop/lid; other site 321956003899 ABC transporter signature motif; other site 321956003900 Walker B; other site 321956003901 D-loop; other site 321956003902 H-loop/switch region; other site 321956003903 Smr domain; Region: Smr; pfam01713 321956003904 hypothetical protein; Provisional; Region: PRK13678 321956003905 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 321956003906 hypothetical protein; Provisional; Region: PRK05473 321956003907 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 321956003908 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 321956003909 motif 1; other site 321956003910 active site 321956003911 motif 2; other site 321956003912 motif 3; other site 321956003913 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 321956003914 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 321956003915 DEAD-like helicases superfamily; Region: DEXDc; smart00487 321956003916 ATP binding site [chemical binding]; other site 321956003917 putative Mg++ binding site [ion binding]; other site 321956003918 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 321956003919 nucleotide binding region [chemical binding]; other site 321956003920 ATP-binding site [chemical binding]; other site 321956003921 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 321956003922 DHH family; Region: DHH; pfam01368 321956003923 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 321956003924 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 321956003925 active site 321956003926 DNA polymerase IV; Validated; Region: PRK02406 321956003927 DNA binding site [nucleotide binding] 321956003928 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 321956003929 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 321956003930 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 321956003931 Preprotein translocase subunit; Region: YajC; pfam02699 321956003932 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 321956003933 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 321956003934 Walker A motif; other site 321956003935 ATP binding site [chemical binding]; other site 321956003936 Walker B motif; other site 321956003937 arginine finger; other site 321956003938 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 321956003939 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 321956003940 RuvA N terminal domain; Region: RuvA_N; pfam01330 321956003941 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 321956003942 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 321956003943 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 321956003944 ATP binding site [chemical binding]; other site 321956003945 Mg2+ binding site [ion binding]; other site 321956003946 G-X-G motif; other site 321956003947 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 321956003948 ATP binding site [chemical binding]; other site 321956003949 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 321956003950 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 321956003951 MutS domain I; Region: MutS_I; pfam01624 321956003952 MutS domain II; Region: MutS_II; pfam05188 321956003953 MutS domain III; Region: MutS_III; pfam05192 321956003954 MutS domain V; Region: MutS_V; pfam00488 321956003955 Walker A/P-loop; other site 321956003956 ATP binding site [chemical binding]; other site 321956003957 Q-loop/lid; other site 321956003958 ABC transporter signature motif; other site 321956003959 Walker B; other site 321956003960 D-loop; other site 321956003961 H-loop/switch region; other site 321956003962 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 321956003963 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 321956003964 ring oligomerisation interface [polypeptide binding]; other site 321956003965 ATP/Mg binding site [chemical binding]; other site 321956003966 stacking interactions; other site 321956003967 hinge regions; other site 321956003968 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 321956003969 oligomerisation interface [polypeptide binding]; other site 321956003970 mobile loop; other site 321956003971 roof hairpin; other site 321956003972 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 321956003973 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 321956003974 CoA binding domain; Region: CoA_binding; pfam02629 321956003975 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 321956003976 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 321956003977 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 321956003978 ABC transporter; Region: ABC_tran_2; pfam12848 321956003979 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 321956003980 UGMP family protein; Validated; Region: PRK09604 321956003981 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 321956003982 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 321956003983 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 321956003984 Coenzyme A binding pocket [chemical binding]; other site 321956003985 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 321956003986 Glycoprotease family; Region: Peptidase_M22; pfam00814 321956003987 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 321956003988 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 321956003989 active site 321956003990 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 321956003991 active site 321956003992 Predicted methyltransferases [General function prediction only]; Region: COG0313 321956003993 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 321956003994 putative SAM binding site [chemical binding]; other site 321956003995 putative homodimer interface [polypeptide binding]; other site 321956003996 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 321956003997 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 321956003998 Protein of unknown function (DUF970); Region: DUF970; cl17525 321956003999 thymidylate kinase; Validated; Region: tmk; PRK00698 321956004000 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 321956004001 TMP-binding site; other site 321956004002 ATP-binding site [chemical binding]; other site 321956004003 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 321956004004 recombination protein RecR; Reviewed; Region: recR; PRK00076 321956004005 RecR protein; Region: RecR; pfam02132 321956004006 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 321956004007 putative active site [active] 321956004008 putative metal-binding site [ion binding]; other site 321956004009 tetramer interface [polypeptide binding]; other site 321956004010 hypothetical protein; Validated; Region: PRK00153 321956004011 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 321956004012 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 321956004013 Walker A motif; other site 321956004014 ATP binding site [chemical binding]; other site 321956004015 Walker B motif; other site 321956004016 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 321956004017 nucleoside/Zn binding site; other site 321956004018 dimer interface [polypeptide binding]; other site 321956004019 catalytic motif [active] 321956004020 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 321956004021 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 321956004022 S-adenosylmethionine binding site [chemical binding]; other site 321956004023 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 321956004024 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 321956004025 active site 321956004026 Beta-lactamase; Region: Beta-lactamase; pfam00144 321956004027 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 321956004028 Beta-lactamase; Region: Beta-lactamase; pfam00144 321956004029 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 321956004030 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 321956004031 IHF dimer interface [polypeptide binding]; other site 321956004032 IHF - DNA interface [nucleotide binding]; other site 321956004033 ApbE family; Region: ApbE; pfam02424 321956004034 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 321956004035 beta-alpha-beta structure motif; other site 321956004036 NAD binding pocket [chemical binding]; other site 321956004037 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 321956004038 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 321956004039 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 321956004040 core dimer interface [polypeptide binding]; other site 321956004041 peripheral dimer interface [polypeptide binding]; other site 321956004042 L10 interface [polypeptide binding]; other site 321956004043 L11 interface [polypeptide binding]; other site 321956004044 putative EF-Tu interaction site [polypeptide binding]; other site 321956004045 putative EF-G interaction site [polypeptide binding]; other site 321956004046 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 321956004047 23S rRNA interface [nucleotide binding]; other site 321956004048 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 321956004049 Probable transposase; Region: OrfB_IS605; pfam01385 321956004050 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 321956004051 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 321956004052 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 321956004053 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 321956004054 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 321956004055 active site 321956004056 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 321956004057 mRNA/rRNA interface [nucleotide binding]; other site 321956004058 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 321956004059 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 321956004060 23S rRNA interface [nucleotide binding]; other site 321956004061 L7/L12 interface [polypeptide binding]; other site 321956004062 putative thiostrepton binding site; other site 321956004063 L25 interface [polypeptide binding]; other site 321956004064 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 321956004065 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 321956004066 putative homodimer interface [polypeptide binding]; other site 321956004067 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 321956004068 heterodimer interface [polypeptide binding]; other site 321956004069 homodimer interface [polypeptide binding]; other site 321956004070 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 321956004071 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 321956004072 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 321956004073 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 321956004074 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 321956004075 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 321956004076 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 321956004077 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 321956004078 active site 321956004079 metal binding site [ion binding]; metal-binding site 321956004080 dimerization interface [polypeptide binding]; other site 321956004081 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 321956004082 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 321956004083 active site 321956004084 HIGH motif; other site 321956004085 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 321956004086 KMSKS motif; other site 321956004087 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 321956004088 tRNA binding surface [nucleotide binding]; other site 321956004089 anticodon binding site; other site 321956004090 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 321956004091 nudix motif; other site 321956004092 Transcriptional regulator [Transcription]; Region: LysR; COG0583 321956004093 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 321956004094 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 321956004095 dimerization interface [polypeptide binding]; other site 321956004096 Predicted membrane protein [Function unknown]; Region: COG2855 321956004097 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 321956004098 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 321956004099 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 321956004100 active site 321956004101 KMSKS motif; other site 321956004102 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 321956004103 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 321956004104 Walker A/P-loop; other site 321956004105 ATP binding site [chemical binding]; other site 321956004106 Q-loop/lid; other site 321956004107 ABC transporter signature motif; other site 321956004108 Walker B; other site 321956004109 D-loop; other site 321956004110 H-loop/switch region; other site 321956004111 Predicted transcriptional regulators [Transcription]; Region: COG1725 321956004112 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 321956004113 DNA-binding site [nucleotide binding]; DNA binding site 321956004114 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 321956004115 ADP-ribose binding site [chemical binding]; other site 321956004116 dimer interface [polypeptide binding]; other site 321956004117 active site 321956004118 nudix motif; other site 321956004119 metal binding site [ion binding]; metal-binding site 321956004120 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 321956004121 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 321956004122 glucose-1-phosphate thymidylyltransferase RfbA; Provisional; Region: PRK15480 321956004123 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 321956004124 active site 321956004125 Substrate binding site; other site 321956004126 Mg++ binding site; other site 321956004127 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 321956004128 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 321956004129 ATP binding site [chemical binding]; other site 321956004130 substrate binding site [chemical binding]; other site 321956004131 H+ Antiporter protein; Region: 2A0121; TIGR00900 321956004132 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 321956004133 putative substrate translocation pore; other site 321956004134 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 321956004135 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 321956004136 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 321956004137 active site 321956004138 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 321956004139 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 321956004140 metal binding site [ion binding]; metal-binding site 321956004141 active site 321956004142 I-site; other site 321956004143 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; cl00290 321956004144 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 321956004145 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 321956004146 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 321956004147 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 321956004148 putative catalytic cysteine [active] 321956004149 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 321956004150 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 321956004151 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 321956004152 Walker A/P-loop; other site 321956004153 ATP binding site [chemical binding]; other site 321956004154 Q-loop/lid; other site 321956004155 ABC transporter signature motif; other site 321956004156 Walker B; other site 321956004157 D-loop; other site 321956004158 H-loop/switch region; other site 321956004159 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 321956004160 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 321956004161 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 321956004162 Walker A/P-loop; other site 321956004163 ATP binding site [chemical binding]; other site 321956004164 Q-loop/lid; other site 321956004165 ABC transporter signature motif; other site 321956004166 Walker B; other site 321956004167 D-loop; other site 321956004168 H-loop/switch region; other site 321956004169 hypothetical protein; Provisional; Region: PRK13661 321956004170 Uncharacterized conserved protein [Function unknown]; Region: COG1912 321956004171 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 321956004172 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 321956004173 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 321956004174 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 321956004175 Walker A/P-loop; other site 321956004176 ATP binding site [chemical binding]; other site 321956004177 Q-loop/lid; other site 321956004178 ABC transporter signature motif; other site 321956004179 Walker B; other site 321956004180 D-loop; other site 321956004181 H-loop/switch region; other site 321956004182 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 321956004183 DNA-binding site [nucleotide binding]; DNA binding site 321956004184 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 321956004185 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 321956004186 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 321956004187 Ligand binding site; other site 321956004188 metal-binding site 321956004189 DNA repair protein RadA; Provisional; Region: PRK11823 321956004190 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 321956004191 Walker A motif/ATP binding site; other site 321956004192 ATP binding site [chemical binding]; other site 321956004193 Walker B motif; other site 321956004194 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 321956004195 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 321956004196 trimer interface [polypeptide binding]; other site 321956004197 active site 321956004198 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 321956004199 trimer interface [polypeptide binding]; other site 321956004200 active site 321956004201 G bulge; other site 321956004202 AAA domain; Region: AAA_33; pfam13671 321956004203 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 321956004204 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 321956004205 catalytic core [active] 321956004206 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 321956004207 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 321956004208 catalytic core [active] 321956004209 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 321956004210 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 321956004211 hypothetical protein; Provisional; Region: PRK10621 321956004212 DJ-1 family protein; Region: not_thiJ; TIGR01383 321956004213 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 321956004214 conserved cys residue [active] 321956004215 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 321956004216 Coenzyme A binding pocket [chemical binding]; other site 321956004217 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 321956004218 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 321956004219 active site 321956004220 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 321956004221 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 321956004222 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 321956004223 dipeptidase PepV; Region: dipeptidase; TIGR01886 321956004224 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 321956004225 active site 321956004226 metal binding site [ion binding]; metal-binding site 321956004227 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 321956004228 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 321956004229 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 321956004230 Aspartase; Region: Aspartase; cd01357 321956004231 active sites [active] 321956004232 tetramer interface [polypeptide binding]; other site 321956004233 SEC10/PgrA surface exclusion domain; Region: Surf_Exclu_PgrA; TIGR04320 321956004234 homoserine kinase; Provisional; Region: PRK01212 321956004235 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 321956004236 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 321956004237 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 321956004238 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 321956004239 pyridoxal 5'-phosphate binding site [chemical binding]; other site 321956004240 catalytic residue [active] 321956004241 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 321956004242 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 321956004243 Coenzyme A binding pocket [chemical binding]; other site 321956004244 Protein of unknown function (DUF1211); Region: DUF1211; pfam06736 321956004245 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl17402 321956004246 Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs; Region: PBP1_Qymf_like; cd06291 321956004247 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 321956004248 dimerization interface [polypeptide binding]; other site 321956004249 ligand binding site [chemical binding]; other site 321956004250 sodium binding site [ion binding]; other site 321956004251 6-phosphofructokinase; Provisional; Region: PRK03202 321956004252 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 321956004253 active site 321956004254 ADP/pyrophosphate binding site [chemical binding]; other site 321956004255 dimerization interface [polypeptide binding]; other site 321956004256 allosteric effector site; other site 321956004257 fructose-1,6-bisphosphate binding site; other site 321956004258 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 321956004259 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 321956004260 active site 321956004261 substrate binding site [chemical binding]; other site 321956004262 metal binding site [ion binding]; metal-binding site 321956004263 putative ornithine decarboxylase; Region: lacto_ODC_hypo; TIGR04318 321956004264 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 321956004265 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 321956004266 catalytic residue [active] 321956004267 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 321956004268 Amino acid permease; Region: AA_permease_2; pfam13520 321956004269 Major Facilitator Superfamily; Region: MFS_1; pfam07690 321956004270 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 321956004271 putative substrate translocation pore; other site 321956004272 Major Facilitator Superfamily; Region: MFS_1; pfam07690 321956004273 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 321956004274 putative substrate translocation pore; other site 321956004275 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 321956004276 Helix-turn-helix domain; Region: HTH_38; pfam13936 321956004277 Integrase core domain; Region: rve; pfam00665 321956004278 Alpha amylase catalytic domain found in archaeal and bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_AmyA; cd11313 321956004279 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 321956004280 active site 321956004281 catalytic site [active] 321956004282 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 321956004283 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 321956004284 putative substrate translocation pore; other site 321956004285 Transposase; Region: DEDD_Tnp_IS110; pfam01548 321956004286 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 321956004287 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 321956004288 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_b1; cd09203 321956004289 PLD-like domain; Region: PLDc_2; pfam13091 321956004290 putative homodimer interface [polypeptide binding]; other site 321956004291 putative active site [active] 321956004292 catalytic site [active] 321956004293 DEAD-like helicases superfamily; Region: DEXDc; smart00487 321956004294 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 321956004295 ATP binding site [chemical binding]; other site 321956004296 putative Mg++ binding site [ion binding]; other site 321956004297 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 321956004298 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 321956004299 nucleotide binding region [chemical binding]; other site 321956004300 ATP-binding site [chemical binding]; other site 321956004301 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 321956004302 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 321956004303 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 321956004304 NAD binding site [chemical binding]; other site 321956004305 homodimer interface [polypeptide binding]; other site 321956004306 active site 321956004307 substrate binding site [chemical binding]; other site 321956004308 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 321956004309 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 321956004310 non-specific DNA binding site [nucleotide binding]; other site 321956004311 salt bridge; other site 321956004312 sequence-specific DNA binding site [nucleotide binding]; other site 321956004313 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 321956004314 NlpC/P60 family; Region: NLPC_P60; pfam00877 321956004315 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 321956004316 Spore germination protein; Region: Spore_permease; cl17796 321956004317 replication factor C small subunit 2; Reviewed; Region: PRK12402 321956004318 Domain of unknown function (DUF956); Region: DUF956; pfam06115 321956004319 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 321956004320 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 321956004321 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 321956004322 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 321956004323 active pocket/dimerization site; other site 321956004324 active site 321956004325 phosphorylation site [posttranslational modification] 321956004326 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 321956004327 active site 321956004328 phosphorylation site [posttranslational modification] 321956004329 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 321956004330 Transposase; Region: DEDD_Tnp_IS110; pfam01548 321956004331 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 321956004332 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 321956004333 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 321956004334 H+/citrate symporter [Energy production and conversion]; Region: CitM; cl17620 321956004335 similar to hypothetical protein 321956004336 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 321956004337 FeS assembly protein SufB; Region: sufB; TIGR01980 321956004338 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 321956004339 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 321956004340 trimerization site [polypeptide binding]; other site 321956004341 active site 321956004342 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 321956004343 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 321956004344 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 321956004345 catalytic residue [active] 321956004346 FeS assembly protein SufD; Region: sufD; TIGR01981 321956004347 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 321956004348 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 321956004349 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 321956004350 Walker A/P-loop; other site 321956004351 ATP binding site [chemical binding]; other site 321956004352 Q-loop/lid; other site 321956004353 ABC transporter signature motif; other site 321956004354 Walker B; other site 321956004355 D-loop; other site 321956004356 H-loop/switch region; other site 321956004357 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 321956004358 Coenzyme A binding pocket [chemical binding]; other site 321956004359 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 321956004360 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 321956004361 Walker A/P-loop; other site 321956004362 ATP binding site [chemical binding]; other site 321956004363 Q-loop/lid; other site 321956004364 ABC transporter signature motif; other site 321956004365 Walker B; other site 321956004366 D-loop; other site 321956004367 H-loop/switch region; other site 321956004368 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 321956004369 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 321956004370 SmpB-tmRNA interface; other site 321956004371 ribonuclease R; Region: RNase_R; TIGR02063 321956004372 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 321956004373 RNB domain; Region: RNB; pfam00773 321956004374 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 321956004375 RNA binding site [nucleotide binding]; other site 321956004376 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 321956004377 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 321956004378 Sulfatase; Region: Sulfatase; pfam00884 321956004379 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 321956004380 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 321956004381 Glycosyl transferase 4-like domain; Region: Glyco_trans_4_4; pfam13579 321956004382 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 321956004383 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 321956004384 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 321956004385 putative ADP-binding pocket [chemical binding]; other site 321956004386 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 321956004387 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 321956004388 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 321956004389 seryl-tRNA synthetase; Provisional; Region: PRK05431 321956004390 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 321956004391 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 321956004392 dimer interface [polypeptide binding]; other site 321956004393 active site 321956004394 motif 1; other site 321956004395 motif 2; other site 321956004396 motif 3; other site 321956004397 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 321956004398 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 321956004399 Uncharacterized conserved protein [Function unknown]; Region: COG0398 321956004400 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 321956004401 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 321956004402 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 321956004403 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 321956004404 non-specific DNA binding site [nucleotide binding]; other site 321956004405 salt bridge; other site 321956004406 sequence-specific DNA binding site [nucleotide binding]; other site 321956004407 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 321956004408 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 321956004409 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 321956004410 catalytic triad [active] 321956004411 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 321956004412 MMPL family; Region: MMPL; pfam03176 321956004413 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 321956004414 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 321956004415 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 321956004416 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 321956004417 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 321956004418 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 321956004419 Cl binding site [ion binding]; other site 321956004420 oligomer interface [polypeptide binding]; other site 321956004421 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 321956004422 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 321956004423 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 321956004424 Coenzyme A binding pocket [chemical binding]; other site 321956004425 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 321956004426 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 321956004427 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 321956004428 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 321956004429 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 321956004430 active site 321956004431 catalytic tetrad [active] 321956004432 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 321956004433 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 321956004434 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 321956004435 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 321956004436 Walker A/P-loop; other site 321956004437 ATP binding site [chemical binding]; other site 321956004438 Q-loop/lid; other site 321956004439 ABC transporter signature motif; other site 321956004440 Walker B; other site 321956004441 D-loop; other site 321956004442 H-loop/switch region; other site 321956004443 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 321956004444 Integrase core domain; Region: rve; pfam00665 321956004445 aldehyde dehydrogenase family 7 member; Region: PLN02315 321956004446 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 321956004447 TAP-like protein; Region: Abhydrolase_4; pfam08386 321956004448 Helix-turn-helix domain; Region: HTH_25; pfam13413 321956004449 elongation factor P; Validated; Region: PRK00529 321956004450 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 321956004451 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 321956004452 RNA binding site [nucleotide binding]; other site 321956004453 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 321956004454 RNA binding site [nucleotide binding]; other site 321956004455 pantothenate kinase; Provisional; Region: PRK05439 321956004456 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 321956004457 ATP-binding site [chemical binding]; other site 321956004458 CoA-binding site [chemical binding]; other site 321956004459 Mg2+-binding site [ion binding]; other site 321956004460 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 321956004461 active site 321956004462 catalytic triad [active] 321956004463 oxyanion hole [active] 321956004464 LytTr DNA-binding domain; Region: LytTR; smart00850 321956004465 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 321956004466 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 321956004467 Part of AAA domain; Region: AAA_19; pfam13245 321956004468 Family description; Region: UvrD_C_2; pfam13538 321956004469 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 321956004470 active site 321956004471 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 321956004472 catalytic core [active] 321956004473 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 321956004474 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 321956004475 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 321956004476 active site 321956004477 catalytic site [active] 321956004478 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 321956004479 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_2; cd08582 321956004480 putative active site [active] 321956004481 catalytic site [active] 321956004482 putative metal binding site [ion binding]; other site 321956004483 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 321956004484 active site 321956004485 metal binding site [ion binding]; metal-binding site 321956004486 Xanthine dehydrogenase, iron-sulfur cluster and FAD-binding subunit A [Nucleotide transport and metabolism]; Region: XdhA; COG4630 321956004487 VanZ like family; Region: VanZ; pfam04892 321956004488 Predicted membrane protein [Function unknown]; Region: COG2246 321956004489 GtrA-like protein; Region: GtrA; pfam04138 321956004490 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 321956004491 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 321956004492 active site 321956004493 nucleotide binding site [chemical binding]; other site 321956004494 HIGH motif; other site 321956004495 KMSKS motif; other site 321956004496 LicD family; Region: LicD; pfam04991 321956004497 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 321956004498 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 321956004499 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 321956004500 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 321956004501 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 321956004502 putative ADP-binding pocket [chemical binding]; other site 321956004503 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 321956004504 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_b; cd04185 321956004505 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 321956004506 Probable Catalytic site; other site 321956004507 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 321956004508 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 321956004509 UDP-galactopyranose mutase; Region: GLF; pfam03275 321956004510 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 321956004511 Bacterial sugar transferase; Region: Bac_transf; pfam02397 321956004512 Core-2/I-Branching enzyme; Region: Branch; pfam02485 321956004513 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 321956004514 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 321956004515 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 321956004516 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 321956004517 non-specific DNA binding site [nucleotide binding]; other site 321956004518 salt bridge; other site 321956004519 sequence-specific DNA binding site [nucleotide binding]; other site 321956004520 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 321956004521 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 321956004522 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 321956004523 Transposase; Region: DEDD_Tnp_IS110; pfam01548 321956004524 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 321956004525 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 321956004526 methionine sulfoxide reductase B; Provisional; Region: PRK00222 321956004527 SelR domain; Region: SelR; pfam01641 321956004528 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 321956004529 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 321956004530 sequence-specific DNA binding site [nucleotide binding]; other site 321956004531 salt bridge; other site 321956004532 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 321956004533 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 321956004534 NADP binding site [chemical binding]; other site 321956004535 active site 321956004536 putative substrate binding site [chemical binding]; other site 321956004537 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 321956004538 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 321956004539 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 321956004540 NAD binding site [chemical binding]; other site 321956004541 substrate binding site [chemical binding]; other site 321956004542 homodimer interface [polypeptide binding]; other site 321956004543 active site 321956004544 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 321956004545 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 321956004546 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 321956004547 Transposase, Mutator family; Region: Transposase_mut; pfam00872 321956004548 MULE transposase domain; Region: MULE; pfam10551 321956004549 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 321956004550 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 321956004551 active site 321956004552 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 321956004553 Transposase; Region: DEDD_Tnp_IS110; pfam01548 321956004554 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 321956004555 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 321956004556 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 321956004557 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 321956004558 active site 321956004559 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 321956004560 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; pfam04101 321956004561 Oligosaccharide biosynthesis protein Alg14 like; Region: Alg14; pfam08660 321956004562 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 321956004563 Bacterial sugar transferase; Region: Bac_transf; pfam02397 321956004564 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 321956004565 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 321956004566 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 321956004567 Nucleotide binding site [chemical binding]; other site 321956004568 DTAP/Switch II; other site 321956004569 Switch I; other site 321956004570 Chain length determinant protein; Region: Wzz; cl15801 321956004571 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 321956004572 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; pfam03816 321956004573 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 321956004574 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 321956004575 HflX GTPase family; Region: HflX; cd01878 321956004576 G1 box; other site 321956004577 GTP/Mg2+ binding site [chemical binding]; other site 321956004578 Switch I region; other site 321956004579 G2 box; other site 321956004580 G3 box; other site 321956004581 Switch II region; other site 321956004582 G4 box; other site 321956004583 G5 box; other site 321956004584 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 321956004585 NlpC/P60 family; Region: NLPC_P60; cl17555 321956004586 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 321956004587 NlpC/P60 family; Region: NLPC_P60; pfam00877 321956004588 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 321956004589 NlpC/P60 family; Region: NLPC_P60; pfam00877 321956004590 (R)-2-Hydroxyglutarate Dehydrogenase and related dehydrogenases, NAD-binding and catalytic domains; Region: HGDH_like; cd12184 321956004591 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 321956004592 putative homodimer interface [polypeptide binding]; other site 321956004593 putative ligand binding site [chemical binding]; other site 321956004594 putative NAD binding site [chemical binding]; other site 321956004595 catalytic site [active] 321956004596 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 321956004597 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 321956004598 catalytic site [active] 321956004599 G-X2-G-X-G-K; other site 321956004600 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 321956004601 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 321956004602 Uncharacterized conserved protein [Function unknown]; Region: COG2966 321956004603 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 321956004604 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 321956004605 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 321956004606 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 321956004607 Walker A/P-loop; other site 321956004608 ATP binding site [chemical binding]; other site 321956004609 Q-loop/lid; other site 321956004610 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 321956004611 ABC transporter signature motif; other site 321956004612 Walker B; other site 321956004613 D-loop; other site 321956004614 ABC transporter; Region: ABC_tran_2; pfam12848 321956004615 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 321956004616 Predicted membrane protein (DUF2109); Region: DUF2109; cl01660 321956004617 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 321956004618 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 321956004619 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 321956004620 active site 321956004621 Zn binding site [ion binding]; other site 321956004622 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 321956004623 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 321956004624 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; cl00462 321956004625 ABC-ATPase subunit interface; other site 321956004626 dimer interface [polypeptide binding]; other site 321956004627 putative PBP binding regions; other site 321956004628 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 321956004629 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 321956004630 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 321956004631 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 321956004632 active site 321956004633 motif I; other site 321956004634 motif II; other site 321956004635 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 321956004636 motif II; other site 321956004637 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 321956004638 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 321956004639 active site 321956004640 phosphorylation site [posttranslational modification] 321956004641 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 321956004642 active site 321956004643 P-loop; other site 321956004644 phosphorylation site [posttranslational modification] 321956004645 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 321956004646 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 321956004647 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 321956004648 putative substrate binding site [chemical binding]; other site 321956004649 putative ATP binding site [chemical binding]; other site 321956004650 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 321956004651 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 321956004652 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 321956004653 aspartate racemase; Region: asp_race; TIGR00035 321956004654 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 321956004655 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 321956004656 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 321956004657 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 321956004658 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 321956004659 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 321956004660 dimer interface [polypeptide binding]; other site 321956004661 phosphorylation site [posttranslational modification] 321956004662 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 321956004663 ATP binding site [chemical binding]; other site 321956004664 Mg2+ binding site [ion binding]; other site 321956004665 G-X-G motif; other site 321956004666 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 321956004667 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 321956004668 active site 321956004669 phosphorylation site [posttranslational modification] 321956004670 intermolecular recognition site; other site 321956004671 dimerization interface [polypeptide binding]; other site 321956004672 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 321956004673 DNA binding site [nucleotide binding] 321956004674 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 321956004675 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 321956004676 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 321956004677 Walker A/P-loop; other site 321956004678 ATP binding site [chemical binding]; other site 321956004679 Q-loop/lid; other site 321956004680 ABC transporter signature motif; other site 321956004681 Walker B; other site 321956004682 D-loop; other site 321956004683 H-loop/switch region; other site 321956004684 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 321956004685 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 321956004686 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 321956004687 Walker A/P-loop; other site 321956004688 ATP binding site [chemical binding]; other site 321956004689 Q-loop/lid; other site 321956004690 ABC transporter signature motif; other site 321956004691 Walker B; other site 321956004692 D-loop; other site 321956004693 H-loop/switch region; other site 321956004694 Protein of unknown function (DUF1129); Region: DUF1129; pfam06570 321956004695 GTP-binding protein YchF; Reviewed; Region: PRK09601 321956004696 YchF GTPase; Region: YchF; cd01900 321956004697 G1 box; other site 321956004698 GTP/Mg2+ binding site [chemical binding]; other site 321956004699 Switch I region; other site 321956004700 G2 box; other site 321956004701 Switch II region; other site 321956004702 G3 box; other site 321956004703 G4 box; other site 321956004704 G5 box; other site 321956004705 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 321956004706 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 321956004707 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 321956004708 ParB-like nuclease domain; Region: ParB; smart00470 321956004709 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 321956004710 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 321956004711 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 321956004712 P-loop; other site 321956004713 Magnesium ion binding site [ion binding]; other site 321956004714 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 321956004715 ParB-like nuclease domain; Region: ParB; smart00470 321956004716 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 321956004717 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 321956004718 S-adenosylmethionine binding site [chemical binding]; other site 321956004719 Colicin V production protein; Region: Colicin_V; pfam02674 321956004720 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 321956004721 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 321956004722 Predicted flavoprotein [General function prediction only]; Region: COG0431 321956004723 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 321956004724 Predicted flavoprotein [General function prediction only]; Region: COG0431 321956004725 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 321956004726 WHG domain; Region: WHG; pfam13305 321956004727 Peptidase family C69; Region: Peptidase_C69; pfam03577 321956004728 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 321956004729 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 321956004730 Walker A/P-loop; other site 321956004731 ATP binding site [chemical binding]; other site 321956004732 Q-loop/lid; other site 321956004733 ABC transporter signature motif; other site 321956004734 Walker B; other site 321956004735 D-loop; other site 321956004736 H-loop/switch region; other site 321956004737 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 321956004738 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 321956004739 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 321956004740 hypothetical protein; Validated; Region: PRK02101 321956004741 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 321956004742 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 321956004743 Peptidase family M1; Region: Peptidase_M1; pfam01433 321956004744 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 321956004745 Zn binding site [ion binding]; other site 321956004746 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 321956004747 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 321956004748 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 321956004749 Peptidase family C69; Region: Peptidase_C69; pfam03577 321956004750 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 321956004751 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 321956004752 transmembrane helices; other site 321956004753 fumarate hydratase; Reviewed; Region: fumC; PRK00485 321956004754 Class II fumarases; Region: Fumarase_classII; cd01362 321956004755 active site 321956004756 tetramer interface [polypeptide binding]; other site 321956004757 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 321956004758 putative ADP-ribose binding site [chemical binding]; other site 321956004759 putative active site [active] 321956004760 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 321956004761 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 321956004762 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 321956004763 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 321956004764 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 321956004765 Walker A/P-loop; other site 321956004766 ATP binding site [chemical binding]; other site 321956004767 Q-loop/lid; other site 321956004768 ABC transporter signature motif; other site 321956004769 Walker B; other site 321956004770 D-loop; other site 321956004771 H-loop/switch region; other site 321956004772 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 321956004773 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 321956004774 glycerol kinase; Provisional; Region: glpK; PRK00047 321956004775 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 321956004776 N- and C-terminal domain interface [polypeptide binding]; other site 321956004777 active site 321956004778 MgATP binding site [chemical binding]; other site 321956004779 catalytic site [active] 321956004780 metal binding site [ion binding]; metal-binding site 321956004781 glycerol binding site [chemical binding]; other site 321956004782 homotetramer interface [polypeptide binding]; other site 321956004783 homodimer interface [polypeptide binding]; other site 321956004784 FBP binding site [chemical binding]; other site 321956004785 protein IIAGlc interface [polypeptide binding]; other site 321956004786 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 321956004787 catalytic triad [active] 321956004788 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 321956004789 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 321956004790 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 321956004791 Walker A motif; other site 321956004792 ATP binding site [chemical binding]; other site 321956004793 Walker B motif; other site 321956004794 arginine finger; other site 321956004795 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 321956004796 Walker A motif; other site 321956004797 ATP binding site [chemical binding]; other site 321956004798 Walker B motif; other site 321956004799 arginine finger; other site 321956004800 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 321956004801 adrenodoxin reductase; Provisional; Region: PTZ00188 321956004802 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 321956004803 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 321956004804 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 321956004805 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 321956004806 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 321956004807 ATP-grasp domain; Region: ATP-grasp_4; cl17255 321956004808 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 321956004809 IMP binding site; other site 321956004810 dimer interface [polypeptide binding]; other site 321956004811 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 321956004812 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 321956004813 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 321956004814 catalytic site [active] 321956004815 subunit interface [polypeptide binding]; other site 321956004816 dihydroorotase; Validated; Region: pyrC; PRK09357 321956004817 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 321956004818 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 321956004819 active site 321956004820 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 321956004821 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 321956004822 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 321956004823 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 321956004824 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 321956004825 active site 321956004826 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 321956004827 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 321956004828 heterodimer interface [polypeptide binding]; other site 321956004829 active site 321956004830 FMN binding site [chemical binding]; other site 321956004831 homodimer interface [polypeptide binding]; other site 321956004832 substrate binding site [chemical binding]; other site 321956004833 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 321956004834 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 321956004835 DNA-binding site [nucleotide binding]; DNA binding site 321956004836 RNA-binding motif; other site 321956004837 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 321956004838 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 321956004839 catalytic residues [active] 321956004840 catalytic nucleophile [active] 321956004841 EamA-like transporter family; Region: EamA; pfam00892 321956004842 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 321956004843 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 321956004844 catalytic triad [active] 321956004845 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 321956004846 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 321956004847 active site 321956004848 motif I; other site 321956004849 motif II; other site 321956004850 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 321956004851 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 321956004852 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 321956004853 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 321956004854 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 321956004855 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 321956004856 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 321956004857 Walker A/P-loop; other site 321956004858 ATP binding site [chemical binding]; other site 321956004859 Q-loop/lid; other site 321956004860 ABC transporter signature motif; other site 321956004861 Walker B; other site 321956004862 D-loop; other site 321956004863 H-loop/switch region; other site 321956004864 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 321956004865 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 321956004866 FtsX-like permease family; Region: FtsX; pfam02687 321956004867 similar to hypothetical protein 321956004868 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 321956004869 DltD N-terminal region; Region: DltD_N; pfam04915 321956004870 DltD central region; Region: DltD_M; pfam04918 321956004871 DltD C-terminal region; Region: DltD_C; pfam04914 321956004872 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 321956004873 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 321956004874 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 321956004875 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 321956004876 acyl-activating enzyme (AAE) consensus motif; other site 321956004877 AMP binding site [chemical binding]; other site 321956004878 FOG: CBS domain [General function prediction only]; Region: COG0517 321956004879 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_30; cd04643 321956004880 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 321956004881 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 321956004882 Soluble P-type ATPase [General function prediction only]; Region: COG4087 321956004883 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 321956004884 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 321956004885 CAAX protease self-immunity; Region: Abi; pfam02517 321956004886 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 321956004887 putative active site [active] 321956004888 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 321956004889 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 321956004890 ligand binding site [chemical binding]; other site 321956004891 Catalytic domain of Protein Kinases; Region: PKc; cd00180 321956004892 active site 321956004893 ATP binding site [chemical binding]; other site 321956004894 substrate binding site [chemical binding]; other site 321956004895 activation loop (A-loop); other site 321956004896 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 321956004897 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 321956004898 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 321956004899 ligand binding site [chemical binding]; other site 321956004900 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 321956004901 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 321956004902 ligand binding site [chemical binding]; other site 321956004903 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 321956004904 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 321956004905 Walker A/P-loop; other site 321956004906 ATP binding site [chemical binding]; other site 321956004907 Q-loop/lid; other site 321956004908 ABC transporter signature motif; other site 321956004909 Walker B; other site 321956004910 D-loop; other site 321956004911 H-loop/switch region; other site 321956004912 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 321956004913 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 321956004914 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 321956004915 TM-ABC transporter signature motif; other site 321956004916 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 321956004917 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 321956004918 TM-ABC transporter signature motif; other site 321956004919 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 321956004920 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 321956004921 active site 321956004922 catalytic tetrad [active] 321956004923 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 321956004924 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 321956004925 active site 321956004926 trimer interface [polypeptide binding]; other site 321956004927 allosteric site; other site 321956004928 active site lid [active] 321956004929 hexamer (dimer of trimers) interface [polypeptide binding]; other site 321956004930 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 321956004931 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 321956004932 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 321956004933 Substrate-binding site [chemical binding]; other site 321956004934 Substrate specificity [chemical binding]; other site 321956004935 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 321956004936 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 321956004937 Substrate-binding site [chemical binding]; other site 321956004938 Substrate specificity [chemical binding]; other site 321956004939 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 321956004940 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 321956004941 substrate binding pocket [chemical binding]; other site 321956004942 membrane-bound complex binding site; other site 321956004943 hinge residues; other site 321956004944 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 321956004945 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 321956004946 dimer interface [polypeptide binding]; other site 321956004947 conserved gate region; other site 321956004948 putative PBP binding loops; other site 321956004949 ABC-ATPase subunit interface; other site 321956004950 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 321956004951 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 321956004952 Walker A/P-loop; other site 321956004953 ATP binding site [chemical binding]; other site 321956004954 Q-loop/lid; other site 321956004955 ABC transporter signature motif; other site 321956004956 Walker B; other site 321956004957 D-loop; other site 321956004958 H-loop/switch region; other site 321956004959 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 321956004960 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 321956004961 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 321956004962 Cl- selectivity filter; other site 321956004963 Cl- binding residues [ion binding]; other site 321956004964 pore gating glutamate residue; other site 321956004965 dimer interface [polypeptide binding]; other site 321956004966 H+/Cl- coupling transport residue; other site 321956004967 TrkA-C domain; Region: TrkA_C; pfam02080 321956004968 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 321956004969 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 321956004970 Walker A/P-loop; other site 321956004971 ATP binding site [chemical binding]; other site 321956004972 Q-loop/lid; other site 321956004973 ABC transporter signature motif; other site 321956004974 Walker B; other site 321956004975 D-loop; other site 321956004976 H-loop/switch region; other site 321956004977 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 321956004978 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 321956004979 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 321956004980 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 321956004981 pyruvate oxidase; Region: pyruv_oxi_spxB; TIGR02720 321956004982 PYR/PP interface [polypeptide binding]; other site 321956004983 dimer interface [polypeptide binding]; other site 321956004984 TPP binding site [chemical binding]; other site 321956004985 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 321956004986 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 321956004987 TPP-binding site [chemical binding]; other site 321956004988 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 321956004989 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 321956004990 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 321956004991 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 321956004992 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 321956004993 trmE is a tRNA modification GTPase; Region: trmE; cd04164 321956004994 G1 box; other site 321956004995 GTP/Mg2+ binding site [chemical binding]; other site 321956004996 Switch I region; other site 321956004997 G2 box; other site 321956004998 Switch II region; other site 321956004999 G3 box; other site 321956005000 G4 box; other site 321956005001 G5 box; other site 321956005002 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 321956005003 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 321956005004 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 321956005005 ribonuclease P; Reviewed; Region: rnpA; PRK00499 321956005006 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399