-- dump date 20140619_104831 -- class Genbank::misc_feature -- table misc_feature_note -- id note 71421000001 REFSEQ gene predictions performed by GeneMark 2.4/GeneMark.hmm 2.0 with comparison to original submitter provided annotation; tRNA sequences predicted using tRNAscan-SE 1.21 71421000002 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 71421000003 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 71421000004 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 71421000005 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 71421000006 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 71421000007 acyl-activating enzyme (AAE) consensus motif; other site 71421000008 putative AMP binding site [chemical binding]; other site 71421000009 putative active site [active] 71421000010 putative CoA binding site [chemical binding]; other site 71421000011 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 71421000012 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 71421000013 active site 71421000014 motif I; other site 71421000015 motif II; other site 71421000016 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 71421000017 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 71421000018 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 71421000019 similar to formate dehydrogenase large subunit; contains frameshifts 71421000020 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 71421000021 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 71421000022 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 71421000023 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 71421000024 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 71421000025 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 71421000026 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 71421000027 Coenzyme A binding pocket [chemical binding]; other site 71421000028 DNA polymerase III, psi subunit; Region: DNA_III_psi; TIGR00664 71421000029 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 71421000030 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 71421000031 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 71421000032 S-adenosylmethionine binding site [chemical binding]; other site 71421000033 GTPase Era; Reviewed; Region: era; PRK00089 71421000034 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 71421000035 G1 box; other site 71421000036 GTP/Mg2+ binding site [chemical binding]; other site 71421000037 Switch I region; other site 71421000038 G2 box; other site 71421000039 Switch II region; other site 71421000040 G3 box; other site 71421000041 G4 box; other site 71421000042 G5 box; other site 71421000043 KH domain; Region: KH_2; pfam07650 71421000044 ribonuclease III; Reviewed; Region: rnc; PRK00102 71421000045 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 71421000046 dimerization interface [polypeptide binding]; other site 71421000047 active site 71421000048 metal binding site [ion binding]; metal-binding site 71421000049 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 71421000050 dsRNA binding site [nucleotide binding]; other site 71421000051 signal peptidase I; Provisional; Region: PRK10861 71421000052 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 71421000053 Catalytic site [active] 71421000054 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 71421000055 GTP-binding protein LepA; Provisional; Region: PRK05433 71421000056 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 71421000057 G1 box; other site 71421000058 putative GEF interaction site [polypeptide binding]; other site 71421000059 GTP/Mg2+ binding site [chemical binding]; other site 71421000060 Switch I region; other site 71421000061 G2 box; other site 71421000062 G3 box; other site 71421000063 Switch II region; other site 71421000064 G4 box; other site 71421000065 G5 box; other site 71421000066 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 71421000067 Elongation Factor G, domain II; Region: EFG_II; pfam14492 71421000068 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 71421000069 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 71421000070 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 71421000071 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 71421000072 ligand binding site [chemical binding]; other site 71421000073 active site 71421000074 UGI interface [polypeptide binding]; other site 71421000075 catalytic site [active] 71421000076 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 71421000077 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 71421000078 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 71421000079 FeS/SAM binding site; other site 71421000080 TRAM domain; Region: TRAM; pfam01938 71421000081 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 71421000082 anion transporter; Region: dass; TIGR00785 71421000083 transmembrane helices; other site 71421000084 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; cl01498 71421000085 triphosphoribosyl-dephospho-CoA synthase CitG; Region: citrate_citG; TIGR03125 71421000086 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 71421000087 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 71421000088 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 71421000089 citrate lyase subunit gamma; Provisional; Region: PRK13253 71421000090 [citrate (pro-3S)-lyase] ligase; Region: cit_ly_ligase; TIGR00124 71421000091 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 71421000092 putative active site [active] 71421000093 (T/H)XGH motif; other site 71421000094 lipoyl synthase; Provisional; Region: PRK05481 71421000095 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 71421000096 FeS/SAM binding site; other site 71421000097 lipoate-protein ligase B; Provisional; Region: PRK14342 71421000098 hypothetical protein; Provisional; Region: PRK04998 71421000099 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 71421000100 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 71421000101 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 71421000102 rare lipoprotein A; Region: rlpA; TIGR00413 71421000103 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 71421000104 Sporulation related domain; Region: SPOR; pfam05036 71421000105 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 71421000106 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 71421000107 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 71421000108 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 71421000109 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 71421000110 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 71421000111 putative transporter; Validated; Region: PRK03818 71421000112 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 71421000113 TrkA-C domain; Region: TrkA_C; pfam02080 71421000114 TrkA-C domain; Region: TrkA_C; pfam02080 71421000115 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 71421000116 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 71421000117 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 71421000118 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 71421000119 rod shape-determining protein MreB; Provisional; Region: PRK13927 71421000120 MreB and similar proteins; Region: MreB_like; cd10225 71421000121 nucleotide binding site [chemical binding]; other site 71421000122 Mg binding site [ion binding]; other site 71421000123 putative protofilament interaction site [polypeptide binding]; other site 71421000124 RodZ interaction site [polypeptide binding]; other site 71421000125 rod shape-determining protein MreC; Region: mreC; TIGR00219 71421000126 rod shape-determining protein MreD; Region: MreD; cl01087 71421000127 TIGR01619 family protein; Region: hyp_HI0040 71421000128 Family of unknown function (DUF695); Region: DUF695; pfam05117 71421000129 Regulator of ribonuclease activity B; Region: RraB; pfam06877 71421000130 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 71421000131 putative catalytic site [active] 71421000132 putative phosphate binding site [ion binding]; other site 71421000133 active site 71421000134 metal binding site A [ion binding]; metal-binding site 71421000135 DNA binding site [nucleotide binding] 71421000136 putative AP binding site [nucleotide binding]; other site 71421000137 putative metal binding site B [ion binding]; other site 71421000138 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 71421000139 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 71421000140 active site 71421000141 Predicted membrane protein [Function unknown]; Region: COG3768 71421000142 TIGR01620 family protein; Region: hyp_HI0043 71421000143 YccA-like proteins; Region: YccA_like; cd10433 71421000144 conserved hypothetical protein YtfJ-family, TIGR01626; Region: ytfJ_HI0045 71421000145 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 71421000146 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 71421000147 PhnA protein; Region: PhnA; pfam03831 71421000148 Entner-Doudoroff aldolase; Region: eda; TIGR01182 71421000149 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 71421000150 active site 71421000151 intersubunit interface [polypeptide binding]; other site 71421000152 catalytic residue [active] 71421000153 D-mannonate oxidoreductase; Provisional; Region: PRK08277 71421000154 putative D-mannonate oxidoreductase, classical (c) SDR; Region: mannonate_red_SDR_c; cd08935 71421000155 putative NAD(P) binding site [chemical binding]; other site 71421000156 active site 71421000157 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 71421000158 substrate binding site [chemical binding]; other site 71421000159 ATP binding site [chemical binding]; other site 71421000160 DctM-like transporters; Region: DctM; pfam06808 71421000161 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 71421000162 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 71421000163 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 71421000164 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 71421000165 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 71421000166 putative NAD(P) binding site [chemical binding]; other site 71421000167 catalytic Zn binding site [ion binding]; other site 71421000168 structural Zn binding site [ion binding]; other site 71421000169 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 71421000170 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 71421000171 DNA-binding site [nucleotide binding]; DNA binding site 71421000172 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 71421000173 mannonate dehydratase; Provisional; Region: PRK03906 71421000174 mannonate dehydratase; Region: uxuA; TIGR00695 71421000175 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 71421000176 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 71421000177 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 71421000178 GIY-YIG motif/motif A; other site 71421000179 active site 71421000180 catalytic site [active] 71421000181 putative DNA binding site [nucleotide binding]; other site 71421000182 metal binding site [ion binding]; metal-binding site 71421000183 UvrB/uvrC motif; Region: UVR; pfam02151 71421000184 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 71421000185 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 71421000186 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 71421000187 Ligand binding site; other site 71421000188 oligomer interface; other site 71421000189 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 71421000190 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 71421000191 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 71421000192 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 71421000193 Walker A/P-loop; other site 71421000194 ATP binding site [chemical binding]; other site 71421000195 Q-loop/lid; other site 71421000196 ABC transporter signature motif; other site 71421000197 Walker B; other site 71421000198 D-loop; other site 71421000199 H-loop/switch region; other site 71421000200 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 71421000201 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 71421000202 ComEC/Rec2-related protein; Region: ComEC_N-term; TIGR00360 71421000203 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 71421000204 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 71421000205 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 71421000206 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 71421000207 active site 71421000208 NTP binding site [chemical binding]; other site 71421000209 metal binding triad [ion binding]; metal-binding site 71421000210 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 71421000211 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 71421000212 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 71421000213 catalytic center binding site [active] 71421000214 ATP binding site [chemical binding]; other site 71421000215 tRNA threonylcarbamoyl adenosine modification protein YjeE; Region: T6A_YjeE; TIGR00150 71421000216 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 71421000217 active site 71421000218 metal binding site [ion binding]; metal-binding site 71421000219 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 71421000220 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 71421000221 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 71421000222 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 71421000223 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 71421000224 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 71421000225 ATP binding site [chemical binding]; other site 71421000226 Mg2+ binding site [ion binding]; other site 71421000227 G-X-G motif; other site 71421000228 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 71421000229 ATP binding site [chemical binding]; other site 71421000230 hypothetical protein; Provisional; Region: PHA03160 71421000231 MutL C terminal dimerization domain; Region: MutL_C; pfam08676 71421000232 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 71421000233 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 71421000234 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 71421000235 metal binding triad; other site 71421000236 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 71421000237 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 71421000238 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 71421000239 metal binding triad; other site 71421000240 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; cl19627 71421000241 DNA repair protein RecN; Region: recN; TIGR00634 71421000242 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 71421000243 Walker A/P-loop; other site 71421000244 ATP binding site [chemical binding]; other site 71421000245 Q-loop/lid; other site 71421000246 Plant nuclear matrix protein 1 (NMP1); Region: Plant_NMP1; pfam06694 71421000247 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 71421000248 ABC transporter signature motif; other site 71421000249 Walker B; other site 71421000250 D-loop; other site 71421000251 H-loop/switch region; other site 71421000252 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 71421000253 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 71421000254 dimer interface [polypeptide binding]; other site 71421000255 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 71421000256 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 71421000257 active site 71421000258 NTP binding site [chemical binding]; other site 71421000259 metal binding triad [ion binding]; metal-binding site 71421000260 antibiotic binding site [chemical binding]; other site 71421000261 nucleotidyltransferase substrate binding protein, HI0074 family; Region: HI0074; TIGR01987 71421000262 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 71421000263 ATP cone domain; Region: ATP-cone; pfam03477 71421000264 Class III ribonucleotide reductase; Region: RNR_III; cd01675 71421000265 effector binding site; other site 71421000266 active site 71421000267 Zn binding site [ion binding]; other site 71421000268 glycine loop; other site 71421000269 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 71421000270 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 71421000271 active site 71421000272 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 71421000273 catalytic triad [active] 71421000274 dimer interface [polypeptide binding]; other site 71421000275 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 71421000276 dinuclear metal binding motif [ion binding]; other site 71421000277 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 71421000278 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 71421000279 active site 71421000280 HIGH motif; other site 71421000281 KMSKS motif; other site 71421000282 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 71421000283 tRNA binding surface [nucleotide binding]; other site 71421000284 anticodon binding site; other site 71421000285 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 71421000286 substrate binding site [chemical binding]; other site 71421000287 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3692 71421000288 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 71421000289 active site 71421000290 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 71421000291 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 71421000292 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 71421000293 catalytic residues [active] 71421000294 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 71421000295 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 71421000296 putative ligand binding site [chemical binding]; other site 71421000297 putative NAD binding site [chemical binding]; other site 71421000298 catalytic site [active] 71421000299 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 71421000300 homodimer interface [polypeptide binding]; other site 71421000301 substrate-cofactor binding pocket; other site 71421000302 pyridoxal 5'-phosphate binding site [chemical binding]; other site 71421000303 catalytic residue [active] 71421000304 threonine synthase; Validated; Region: PRK09225 71421000305 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 71421000306 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 71421000307 catalytic residue [active] 71421000308 homoserine kinase; Region: thrB; TIGR00191 71421000309 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 71421000310 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 71421000311 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 71421000312 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 71421000313 nucleotide binding site [chemical binding]; other site 71421000314 substrate binding site [chemical binding]; other site 71421000315 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 71421000316 dimer interface [polypeptide binding]; other site 71421000317 putative threonine allosteric regulatory site; other site 71421000318 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 71421000319 putative threonine allosteric regulatory site; other site 71421000320 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 71421000321 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 71421000322 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 71421000323 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 71421000324 catalytic residue [active] 71421000325 Glycerate kinase family; Region: Gly_kinase; pfam02595 71421000326 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 71421000327 fructuronate transporter; Provisional; Region: PRK10034; cl15264 71421000328 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 71421000329 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 71421000330 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 71421000331 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 71421000332 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 71421000333 Methyltransferase domain; Region: Methyltransf_31; pfam13847 71421000334 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 71421000335 S-adenosylmethionine binding site [chemical binding]; other site 71421000336 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 71421000337 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 71421000338 dimer interface [polypeptide binding]; other site 71421000339 conserved gate region; other site 71421000340 putative PBP binding loops; other site 71421000341 ABC-ATPase subunit interface; other site 71421000342 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 71421000343 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 71421000344 dimer interface [polypeptide binding]; other site 71421000345 conserved gate region; other site 71421000346 putative PBP binding loops; other site 71421000347 ABC-ATPase subunit interface; other site 71421000348 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 71421000349 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 71421000350 Walker A/P-loop; other site 71421000351 ATP binding site [chemical binding]; other site 71421000352 Q-loop/lid; other site 71421000353 ABC transporter signature motif; other site 71421000354 Walker B; other site 71421000355 D-loop; other site 71421000356 H-loop/switch region; other site 71421000357 similar to carobxypeptidase; contains frameshifts 71421000358 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 71421000359 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 71421000360 metal binding site [ion binding]; metal-binding site 71421000361 dimer interface [polypeptide binding]; other site 71421000362 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 71421000363 putative catalytic residues [active] 71421000364 heat shock protein 90; Provisional; Region: PRK05218 71421000365 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 71421000366 ATP binding site [chemical binding]; other site 71421000367 Mg2+ binding site [ion binding]; other site 71421000368 G-X-G motif; other site 71421000369 Hsp90 protein; Region: HSP90; pfam00183 71421000370 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 71421000371 signal recognition particle protein; Provisional; Region: PRK10867 71421000372 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 71421000373 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 71421000374 P loop; other site 71421000375 GTP binding site [chemical binding]; other site 71421000376 Signal peptide binding domain; Region: SRP_SPB; pfam02978 71421000377 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 71421000378 Domain of unknown function DUF21; Region: DUF21; pfam01595 71421000379 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 71421000380 Transporter associated domain; Region: CorC_HlyC; smart01091 71421000381 Uncharacterized conserved protein [Function unknown]; Region: COG2966 71421000382 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 71421000383 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 71421000384 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 71421000385 seryl-tRNA synthetase; Provisional; Region: PRK05431 71421000386 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 71421000387 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 71421000388 dimer interface [polypeptide binding]; other site 71421000389 active site 71421000390 motif 1; other site 71421000391 motif 2; other site 71421000392 motif 3; other site 71421000393 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 71421000394 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 71421000395 C-terminal domain interface [polypeptide binding]; other site 71421000396 GSH binding site (G-site) [chemical binding]; other site 71421000397 dimer interface [polypeptide binding]; other site 71421000398 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 71421000399 dimer interface [polypeptide binding]; other site 71421000400 N-terminal domain interface [polypeptide binding]; other site 71421000401 substrate binding pocket (H-site) [chemical binding]; other site 71421000402 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 71421000403 Helix-turn-helix domain; Region: HTH_28; pfam13518 71421000404 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 71421000405 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 71421000406 N-terminal plug; other site 71421000407 ligand-binding site [chemical binding]; other site 71421000408 similar to N6-adenine-specific DNA methylase; contains frameshifts 71421000409 murein transglycosylase A; Provisional; Region: mltA; PRK11162 71421000410 MltA specific insert domain; Region: MltA; smart00925 71421000411 3D domain; Region: 3D; pfam06725 71421000412 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 71421000413 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 71421000414 putative ATP binding site [chemical binding]; other site 71421000415 putative substrate interface [chemical binding]; other site 71421000416 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 71421000417 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 71421000418 metal binding site [ion binding]; metal-binding site 71421000419 Uncharacterized integral membrane protein [Function unknown]; Region: COG5413 71421000420 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 71421000421 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 71421000422 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 71421000423 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 71421000424 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 71421000425 homodimer interface [polypeptide binding]; other site 71421000426 substrate-cofactor binding pocket; other site 71421000427 pyridoxal 5'-phosphate binding site [chemical binding]; other site 71421000428 catalytic residue [active] 71421000429 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 71421000430 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 71421000431 dimer interface [polypeptide binding]; other site 71421000432 substrate binding site [chemical binding]; other site 71421000433 metal binding sites [ion binding]; metal-binding site 71421000434 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 71421000435 Sulfate transporter family; Region: Sulfate_transp; cl19250 71421000436 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 71421000437 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 71421000438 Walker A/P-loop; other site 71421000439 ATP binding site [chemical binding]; other site 71421000440 Q-loop/lid; other site 71421000441 ABC transporter signature motif; other site 71421000442 Walker B; other site 71421000443 D-loop; other site 71421000444 H-loop/switch region; other site 71421000445 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 71421000446 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 71421000447 dimer interface [polypeptide binding]; other site 71421000448 conserved gate region; other site 71421000449 putative PBP binding loops; other site 71421000450 ABC-ATPase subunit interface; other site 71421000451 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 71421000452 dimer interface [polypeptide binding]; other site 71421000453 conserved gate region; other site 71421000454 putative PBP binding loops; other site 71421000455 ABC-ATPase subunit interface; other site 71421000456 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate binding protein; Region: PhnS; TIGR03227 71421000457 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 71421000458 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 71421000459 ATP-binding site [chemical binding]; other site 71421000460 Sugar specificity; other site 71421000461 Pyrimidine base specificity; other site 71421000462 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 71421000463 trimer interface [polypeptide binding]; other site 71421000464 active site 71421000465 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 71421000466 putative arabinose transporter; Provisional; Region: PRK03545 71421000467 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 71421000468 putative substrate translocation pore; other site 71421000469 GTP-binding protein Der; Reviewed; Region: PRK00093 71421000470 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 71421000471 G1 box; other site 71421000472 GTP/Mg2+ binding site [chemical binding]; other site 71421000473 Switch I region; other site 71421000474 G2 box; other site 71421000475 Switch II region; other site 71421000476 G3 box; other site 71421000477 G4 box; other site 71421000478 G5 box; other site 71421000479 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 71421000480 G1 box; other site 71421000481 GTP/Mg2+ binding site [chemical binding]; other site 71421000482 Switch I region; other site 71421000483 G2 box; other site 71421000484 G3 box; other site 71421000485 Switch II region; other site 71421000486 G4 box; other site 71421000487 G5 box; other site 71421000488 KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; Region: KH_dom-like; pfam14714 71421000489 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 71421000490 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 71421000491 active site 71421000492 catalytic site [active] 71421000493 substrate binding site [chemical binding]; other site 71421000494 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 71421000495 RNA/DNA hybrid binding site [nucleotide binding]; other site 71421000496 active site 71421000497 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 71421000498 trimer interface [polypeptide binding]; other site 71421000499 eyelet of channel; other site 71421000500 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 71421000501 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 71421000502 active site 71421000503 dimer interface [polypeptide binding]; other site 71421000504 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 71421000505 active site 71421000506 trimer interface [polypeptide binding]; other site 71421000507 allosteric site; other site 71421000508 active site lid [active] 71421000509 hexamer (dimer of trimers) interface [polypeptide binding]; other site 71421000510 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 71421000511 inhibitor site; inhibition site 71421000512 active site 71421000513 dimer interface [polypeptide binding]; other site 71421000514 catalytic residue [active] 71421000515 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 71421000516 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 71421000517 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 71421000518 putative active site [active] 71421000519 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 71421000520 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 71421000521 nucleotide binding site [chemical binding]; other site 71421000522 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 71421000523 putative active site cavity [active] 71421000524 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 71421000525 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 71421000526 DctM-like transporters; Region: DctM; pfam06808 71421000527 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 71421000528 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 71421000529 Kelch motif; Region: Kelch_1; pfam01344 71421000530 HflC protein; Region: hflC; TIGR01932 71421000531 High frequency of lysogenization C (HflC) family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_HflC; cd03405 71421000532 FtsH protease regulator HflK; Provisional; Region: PRK10930 71421000533 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 71421000534 High frequency of lysogenization K (HflK) family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_HflK; cd03404 71421000535 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 71421000536 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 71421000537 similar to anaerobic C4-dicarboxylate transporter; contains frameshifts 71421000538 acyl carrier protein; Provisional; Region: acpP; PRK00982 71421000539 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 71421000540 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 71421000541 NAD(P) binding site [chemical binding]; other site 71421000542 homotetramer interface [polypeptide binding]; other site 71421000543 homodimer interface [polypeptide binding]; other site 71421000544 active site 71421000545 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 71421000546 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 71421000547 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 71421000548 dimer interface [polypeptide binding]; other site 71421000549 active site 71421000550 CoA binding pocket [chemical binding]; other site 71421000551 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 71421000552 hypothetical protein; Provisional; Region: PRK11193 71421000553 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 71421000554 glutathione reductase; Validated; Region: PRK06116 71421000555 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 71421000556 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 71421000557 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 71421000558 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG3056 71421000559 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 71421000560 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 71421000561 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 71421000562 lipoyl-biotinyl attachment site [posttranslational modification]; other site 71421000563 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 71421000564 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 71421000565 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 71421000566 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 71421000567 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 71421000568 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 71421000569 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 71421000570 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 71421000571 FAD binding pocket [chemical binding]; other site 71421000572 FAD binding motif [chemical binding]; other site 71421000573 phosphate binding motif [ion binding]; other site 71421000574 beta-alpha-beta structure motif; other site 71421000575 NAD binding pocket [chemical binding]; other site 71421000576 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 71421000577 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 71421000578 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 71421000579 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 71421000580 Ligand Binding Site [chemical binding]; other site 71421000581 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 71421000582 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 71421000583 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 71421000584 RNA binding surface [nucleotide binding]; other site 71421000585 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 71421000586 active site 71421000587 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 71421000588 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 71421000589 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 71421000590 FeS/SAM binding site; other site 71421000591 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 71421000592 Pyruvate formate lyase 1; Region: PFL1; cd01678 71421000593 coenzyme A binding site [chemical binding]; other site 71421000594 active site 71421000595 catalytic residues [active] 71421000596 glycine loop; other site 71421000597 formate transporter FocA; Region: formate_focA; TIGR04060 71421000598 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 71421000599 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 71421000600 nucleotide binding site [chemical binding]; other site 71421000601 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 71421000602 Predicted esterase [General function prediction only]; Region: COG0627 71421000603 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819; cl19187 71421000604 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 71421000605 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 71421000606 substrate binding site [chemical binding]; other site 71421000607 catalytic Zn binding site [ion binding]; other site 71421000608 NAD binding site [chemical binding]; other site 71421000609 structural Zn binding site [ion binding]; other site 71421000610 dimer interface [polypeptide binding]; other site 71421000611 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 71421000612 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 71421000613 DNA binding residues [nucleotide binding] 71421000614 putative dimer interface [polypeptide binding]; other site 71421000615 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 71421000616 sec-independent translocase; Provisional; Region: PRK01770 71421000617 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 71421000618 glutamate dehydrogenase; Provisional; Region: PRK09414 71421000619 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 71421000620 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 71421000621 NAD(P) binding site [chemical binding]; other site 71421000622 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 71421000623 metal binding site 2 [ion binding]; metal-binding site 71421000624 putative DNA binding helix; other site 71421000625 metal binding site 1 [ion binding]; metal-binding site 71421000626 dimer interface [polypeptide binding]; other site 71421000627 structural Zn2+ binding site [ion binding]; other site 71421000628 flavodoxin FldA; Validated; Region: PRK09267 71421000629 Putative lysophospholipase; Region: Hydrolase_4; cl19140 71421000630 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 71421000631 replication initiation regulator SeqA; Provisional; Region: PRK11187 71421000632 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 71421000633 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 71421000634 acyl-activating enzyme (AAE) consensus motif; other site 71421000635 putative AMP binding site [chemical binding]; other site 71421000636 putative active site [active] 71421000637 putative CoA binding site [chemical binding]; other site 71421000638 hypothetical protein; Provisional; Region: PRK11281 71421000639 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 71421000640 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 71421000641 Mechanosensitive ion channel; Region: MS_channel; pfam00924 71421000642 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 71421000643 Tetramer interface [polypeptide binding]; other site 71421000644 active site 71421000645 FMN-binding site [chemical binding]; other site 71421000646 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 71421000647 Penicillin-insensitive murein endopeptidase; Region: Peptidase_M74; pfam03411 71421000648 hypothetical protein; Provisional; Region: PRK10621 71421000649 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 71421000650 putative acyl-acceptor binding pocket; other site 71421000651 selenophosphate synthetase; Provisional; Region: PRK00943 71421000652 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 71421000653 dimerization interface [polypeptide binding]; other site 71421000654 putative ATP binding site [chemical binding]; other site 71421000655 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 71421000656 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 71421000657 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 71421000658 RimM N-terminal domain; Region: RimM; pfam01782 71421000659 PRC-barrel domain; Region: PRC; pfam05239 71421000660 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 71421000661 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 71421000662 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 71421000663 active site 71421000664 metal binding site [ion binding]; metal-binding site 71421000665 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 71421000666 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 71421000667 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 71421000668 ADP binding site [chemical binding]; other site 71421000669 magnesium binding site [ion binding]; other site 71421000670 putative shikimate binding site; other site 71421000671 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 71421000672 active site 71421000673 dimer interface [polypeptide binding]; other site 71421000674 metal binding site [ion binding]; metal-binding site 71421000675 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 71421000676 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 71421000677 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 71421000678 active site 71421000679 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 71421000680 dimerization interface [polypeptide binding]; other site 71421000681 active site 71421000682 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 71421000683 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 71421000684 peptide binding site [polypeptide binding]; other site 71421000685 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 71421000686 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 71421000687 active site 71421000688 Zn binding site [ion binding]; other site 71421000689 similar to type I restriction enzyme; this region contains an authentic frame shift and is not the result of a sequencing artifact; similar to SP:P10484 GB:X75452 PID:41748 PID:450688 71421000690 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 71421000691 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 71421000692 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 71421000693 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 71421000694 similar to restriction enzyme type I helicase subunit; contains frameshifts 71421000695 Predicted membrane protein [Function unknown]; Region: COG3059 71421000696 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 71421000697 active site 71421000698 phosphorylation site [posttranslational modification] 71421000699 intermolecular recognition site; other site 71421000700 dimerization interface [polypeptide binding]; other site 71421000701 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 71421000702 putative binding surface; other site 71421000703 active site 71421000704 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 71421000705 putative uracil binding site [chemical binding]; other site 71421000706 putative active site [active] 71421000707 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 71421000708 BirA biotin operon repressor domain; Region: birA_repr_reg; TIGR00122 71421000709 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 71421000710 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 71421000711 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 71421000712 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 71421000713 active site 71421000714 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 71421000715 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 71421000716 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 71421000717 GMP synthase; Reviewed; Region: guaA; PRK00074 71421000718 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 71421000719 AMP/PPi binding site [chemical binding]; other site 71421000720 candidate oxyanion hole; other site 71421000721 catalytic triad [active] 71421000722 potential glutamine specificity residues [chemical binding]; other site 71421000723 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 71421000724 ATP Binding subdomain [chemical binding]; other site 71421000725 Ligand Binding sites [chemical binding]; other site 71421000726 Dimerization subdomain; other site 71421000727 Predicted permeases [General function prediction only]; Region: RarD; COG2962 71421000728 Multidrug resistance efflux transporter; Region: EmrE; cl19304 71421000729 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 71421000730 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 71421000731 putative DNA binding site [nucleotide binding]; other site 71421000732 putative Zn2+ binding site [ion binding]; other site 71421000733 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 71421000734 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 71421000735 uncharacterized protein, YhcH/YjgK/YiaL family; Region: TIGR00022 71421000736 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 71421000737 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 71421000738 RNase E interface [polypeptide binding]; other site 71421000739 trimer interface [polypeptide binding]; other site 71421000740 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 71421000741 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 71421000742 RNase E interface [polypeptide binding]; other site 71421000743 trimer interface [polypeptide binding]; other site 71421000744 active site 71421000745 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 71421000746 putative nucleic acid binding region [nucleotide binding]; other site 71421000747 G-X-X-G motif; other site 71421000748 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 71421000749 RNA binding site [nucleotide binding]; other site 71421000750 domain interface; other site 71421000751 Lipoprotein NlpI, contains TPR repeats [General function prediction only]; Region: NlpI; COG4785 71421000752 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 71421000753 binding surface 71421000754 TPR motif; other site 71421000755 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 71421000756 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 71421000757 ATP binding site [chemical binding]; other site 71421000758 Mg++ binding site [ion binding]; other site 71421000759 motif III; other site 71421000760 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 71421000761 nucleotide binding region [chemical binding]; other site 71421000762 ATP-binding site [chemical binding]; other site 71421000763 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 71421000764 putative RNA binding site [nucleotide binding]; other site 71421000765 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]; Region: COG4623 71421000766 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 71421000767 substrate binding pocket [chemical binding]; other site 71421000768 membrane-bound complex binding site; other site 71421000769 hinge residues; other site 71421000770 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 71421000771 N-acetyl-D-glucosamine binding site [chemical binding]; other site 71421000772 catalytic residue [active] 71421000773 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 71421000774 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 71421000775 catalytic residues [active] 71421000776 similar to permease; contains frameshifts 71421000777 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 71421000778 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 71421000779 Protein export membrane protein; Region: SecD_SecF; pfam02355 71421000780 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 71421000781 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 71421000782 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 71421000783 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 71421000784 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 71421000785 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 71421000786 CPxP motif; other site 71421000787 Hemerythrin-like domain; Region: Hr-like; cd12108 71421000788 Fe binding site [ion binding]; other site 71421000789 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 71421000790 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 71421000791 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 71421000792 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 71421000793 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 71421000794 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 71421000795 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 71421000796 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 71421000797 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 71421000798 dimer interface [polypeptide binding]; other site 71421000799 ssDNA binding site [nucleotide binding]; other site 71421000800 tetramer (dimer of dimers) interface [polypeptide binding]; other site 71421000801 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 71421000802 Gram-negative bacterial TonB protein C-terminal; Region: TonB_C; pfam03544 71421000803 TonB system transport protein ExbD, group 2; Region: ExbD_2; TIGR02804 71421000804 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 71421000805 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 71421000806 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 71421000807 catalytic triad [active] 71421000808 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 71421000809 dimer interface [polypeptide binding]; other site 71421000810 active site 71421000811 catalytic residue [active] 71421000812 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 71421000813 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 71421000814 30S subunit binding site; other site 71421000815 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 71421000816 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 71421000817 Ligand binding site; other site 71421000818 metal-binding site 71421000819 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 71421000820 active site 71421000821 dimerization interface [polypeptide binding]; other site 71421000822 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 71421000823 active site 71421000824 ATP binding site [chemical binding]; other site 71421000825 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 71421000826 putative active site [active] 71421000827 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 71421000828 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 71421000829 N-terminal plug; other site 71421000830 ligand-binding site [chemical binding]; other site 71421000831 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 71421000832 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 71421000833 Surface antigen; Region: Bac_surface_Ag; pfam01103 71421000834 haemagglutination activity domain; Region: Haemagg_act; pfam05860 71421000835 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 71421000836 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 71421000837 homooctamer interface [polypeptide binding]; other site 71421000838 active site 71421000839 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 71421000840 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 71421000841 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 71421000842 HAMP domain; Region: HAMP; pfam00672 71421000843 Histidine kinase; Region: HisKA_3; pfam07730 71421000844 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 71421000845 ATP binding site [chemical binding]; other site 71421000846 Mg2+ binding site [ion binding]; other site 71421000847 G-X-G motif; other site 71421000848 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 71421000849 FAD binding domain; Region: FAD_binding_4; pfam01565 71421000850 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 71421000851 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 71421000852 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 71421000853 Sigma-70, region 4; Region: Sigma70_r4; pfam04545 71421000854 DNA binding residues [nucleotide binding] 71421000855 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 71421000856 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 71421000857 FMN binding site [chemical binding]; other site 71421000858 active site 71421000859 catalytic residues [active] 71421000860 substrate binding site [chemical binding]; other site 71421000861 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 71421000862 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 71421000863 putative metal binding site [ion binding]; other site 71421000864 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 71421000865 HSP70 interaction site [polypeptide binding]; other site 71421000866 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 71421000867 active site 71421000868 ribonuclease PH; Reviewed; Region: rph; PRK00173 71421000869 Ribonuclease PH; Region: RNase_PH_bact; cd11362 71421000870 hexamer interface [polypeptide binding]; other site 71421000871 active site 71421000872 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 71421000873 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 71421000874 active site 71421000875 HIGH motif; other site 71421000876 KMSKS motif; other site 71421000877 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 71421000878 Sulfatase; Region: Sulfatase; cl19157 71421000879 hypothetical protein; Reviewed; Region: PRK01637 71421000880 hypothetical protein; Provisional; Region: PRK01752 71421000881 SEC-C motif; Region: SEC-C; cl19389 71421000882 SEC-C motif; Region: SEC-C; pfam02810 71421000883 similar to uncharacterized BCR; contains frameshifts 71421000884 uridine phosphorylase; Provisional; Region: PRK11178 71421000885 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 71421000886 metabolite-proton symporter; Region: 2A0106; TIGR00883 71421000887 putative substrate translocation pore; other site 71421000888 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 71421000889 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 71421000890 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 71421000891 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 71421000892 dimer interface [polypeptide binding]; other site 71421000893 tetramer interface [polypeptide binding]; other site 71421000894 PYR/PP interface [polypeptide binding]; other site 71421000895 TPP binding site [chemical binding]; other site 71421000896 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 71421000897 TPP-binding site; other site 71421000898 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 71421000899 isochorismate synthases; Region: isochor_syn; TIGR00543 71421000900 aminotransferase AlaT; Validated; Region: PRK09265 71421000901 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 71421000902 pyridoxal 5'-phosphate binding site [chemical binding]; other site 71421000903 homodimer interface [polypeptide binding]; other site 71421000904 catalytic residue [active] 71421000905 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 71421000906 aromatic amino acid transport protein; Region: araaP; TIGR00837 71421000907 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 71421000908 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 71421000909 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 71421000910 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 71421000911 serine transporter; Region: stp; TIGR00814 71421000912 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 71421000913 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 71421000914 metal-binding site [ion binding] 71421000915 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 71421000916 Soluble P-type ATPase [General function prediction only]; Region: COG4087 71421000917 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 71421000918 metal-binding site [ion binding] 71421000919 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 71421000920 metal-binding site [ion binding] 71421000921 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 71421000922 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 71421000923 DNA binding residues [nucleotide binding] 71421000924 dimer interface [polypeptide binding]; other site 71421000925 copper binding site [ion binding]; other site 71421000926 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 71421000927 dimerization interface [polypeptide binding]; other site 71421000928 DNA binding site [nucleotide binding] 71421000929 corepressor binding sites; other site 71421000930 transcription termination factor Rho; Provisional; Region: rho; PRK09376 71421000931 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 71421000932 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 71421000933 RNA binding site [nucleotide binding]; other site 71421000934 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 71421000935 multimer interface [polypeptide binding]; other site 71421000936 Walker A motif; other site 71421000937 ATP binding site [chemical binding]; other site 71421000938 Walker B motif; other site 71421000939 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 71421000940 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 71421000941 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 71421000942 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 71421000943 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 71421000944 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 71421000945 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 71421000946 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 71421000947 Walker A motif; other site 71421000948 ATP binding site [chemical binding]; other site 71421000949 Walker B motif; other site 71421000950 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 71421000951 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 71421000952 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 71421000953 amidase catalytic site [active] 71421000954 Zn binding residues [ion binding]; other site 71421000955 substrate binding site [chemical binding]; other site 71421000956 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 71421000957 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 71421000958 Transporter associated domain; Region: CorC_HlyC; smart01091 71421000959 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 71421000960 FlhB HrpN YscU SpaS Family; Region: Bac_export_2; cl19167 71421000961 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 71421000962 putative active site [active] 71421000963 catalytic triad [active] 71421000964 putative dimer interface [polypeptide binding]; other site 71421000965 RNA methyltransferase, RsmE family; Region: TIGR00046 71421000966 Putative transcriptional regulator [Transcription]; Region: COG1678 71421000967 RNAse H-fold protein YqgF; Region: RNAse_H_YqgF; TIGR00250 71421000968 DNA recombination-dependent growth factor C [DNA replication, recombination, and repair]; Region: RdgC; COG2974 71421000969 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 71421000970 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 71421000971 Pyrroline-5-carboxylate reductase dimerization; Region: P5CR_dimer; pfam14748 71421000972 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 71421000973 Major Facilitator Superfamily; Region: MFS_1; pfam07690 71421000974 putative substrate translocation pore; other site 71421000975 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 71421000976 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 71421000977 active site 71421000978 Int/Topo IB signature motif; other site 71421000979 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 71421000980 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 71421000981 Walker A motif; other site 71421000982 ATP binding site [chemical binding]; other site 71421000983 Walker B motif; other site 71421000984 arginine finger; other site 71421000985 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 71421000986 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 71421000987 RuvA N terminal domain; Region: RuvA_N; pfam01330 71421000988 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 71421000989 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 71421000990 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 71421000991 active site 71421000992 putative DNA-binding cleft [nucleotide binding]; other site 71421000993 dimer interface [polypeptide binding]; other site 71421000994 hypothetical protein; Validated; Region: PRK00110 71421000995 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_7; cd04664 71421000996 nudix motif; other site 71421000997 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 71421000998 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 71421000999 dimer interface [polypeptide binding]; other site 71421001000 anticodon binding site; other site 71421001001 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 71421001002 homodimer interface [polypeptide binding]; other site 71421001003 motif 1; other site 71421001004 active site 71421001005 motif 2; other site 71421001006 GAD domain; Region: GAD; pfam02938 71421001007 motif 3; other site 71421001008 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 71421001009 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 71421001010 S-adenosylmethionine binding site [chemical binding]; other site 71421001011 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 71421001012 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 71421001013 oligomeric interface; other site 71421001014 putative active site [active] 71421001015 homodimer interface [polypeptide binding]; other site 71421001016 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 71421001017 dimer interface [polypeptide binding]; other site 71421001018 active site 71421001019 metal binding site [ion binding]; metal-binding site 71421001020 glutathione binding site [chemical binding]; other site 71421001021 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 71421001022 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 71421001023 dimer interface [polypeptide binding]; other site 71421001024 catalytic site [active] 71421001025 putative active site [active] 71421001026 putative substrate binding site [chemical binding]; other site 71421001027 Predicted permease [General function prediction only]; Region: COG2056 71421001028 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 71421001029 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 71421001030 elongation factor P; Validated; Region: PRK00529 71421001031 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 71421001032 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 71421001033 RNA binding site [nucleotide binding]; other site 71421001034 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 71421001035 RNA binding site [nucleotide binding]; other site 71421001036 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 71421001037 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 71421001038 FeS/SAM binding site; other site 71421001039 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 71421001040 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 71421001041 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 71421001042 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 71421001043 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 71421001044 Recombination protein O N terminal; Region: RecO_N; pfam11967 71421001045 Recombination protein O C terminal; Region: RecO_C; pfam02565 71421001046 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 71421001047 TRAM domain; Region: TRAM; pfam01938 71421001048 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 71421001049 S-adenosylmethionine binding site [chemical binding]; other site 71421001050 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 71421001051 HD domain; Region: HD_4; pfam13328 71421001052 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 71421001053 synthetase active site [active] 71421001054 NTP binding site [chemical binding]; other site 71421001055 metal binding site [ion binding]; metal-binding site 71421001056 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 71421001057 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 71421001058 Integral membrane diacylglycerol kinase; Region: DAGK_IM; cd14264 71421001059 putative active site [active] 71421001060 trimer interface [polypeptide binding]; other site 71421001061 putative active site [active] 71421001062 Zn binding site [ion binding]; other site 71421001063 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 71421001064 MPT binding site; other site 71421001065 trimer interface [polypeptide binding]; other site 71421001066 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 71421001067 Domain of unknown function DUF20; Region: UPF0118; cl00465 71421001068 primosome assembly protein PriA; Validated; Region: PRK05580 71421001069 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 71421001070 ATP binding site [chemical binding]; other site 71421001071 putative Mg++ binding site [ion binding]; other site 71421001072 helicase superfamily c-terminal domain; Region: HELICc; smart00490 71421001073 tRNA (guanine-N(7)-)-methyltransferase; Region: TIGR00091 71421001074 hypothetical protein; Provisional; Region: PRK11702 71421001075 similar to ferredoxin-type protein; contains frameshifts; similar to SP:P33939 PID:453990 GB:U00096 PID:1736849 PID:1788536 71421001076 Uncharacterized protein involved in formation of periplasmic nitrate reductase [Inorganic ion transport and metabolism]; Region: NapD; COG3062 71421001077 similar to periplasmic nitrate reductase; this region contains an authentic frame shift and is not the result of a sequencing artifact; similar to SP:P33937 PID:453989 GB:U00096 PID:1736847 PID:1788534 71421001078 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 71421001079 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 71421001080 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 71421001081 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 71421001082 4Fe-4S binding domain; Region: Fer4_5; pfam12801 71421001083 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 71421001084 Nitrate reductase cytochrome c-type subunit [Energy production and conversion]; Region: NapB; COG3043 71421001085 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 71421001086 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 71421001087 adenylate kinase; Reviewed; Region: adk; PRK00279 71421001088 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 71421001089 AMP-binding site [chemical binding]; other site 71421001090 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 71421001091 Major Facilitator Superfamily; Region: MFS_1; pfam07690 71421001092 AmpG-like permease; Region: 2A0125; TIGR00901 71421001093 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 71421001094 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 71421001095 NAD binding site [chemical binding]; other site 71421001096 homodimer interface [polypeptide binding]; other site 71421001097 active site 71421001098 substrate binding site [chemical binding]; other site 71421001099 Alpha-2,3-sialyltransferase (CST-I); Region: CST-I; pfam06002 71421001100 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 71421001101 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 71421001102 Walker A/P-loop; other site 71421001103 ATP binding site [chemical binding]; other site 71421001104 Q-loop/lid; other site 71421001105 ABC transporter signature motif; other site 71421001106 Walker B; other site 71421001107 D-loop; other site 71421001108 H-loop/switch region; other site 71421001109 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 71421001110 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 71421001111 dimer interface [polypeptide binding]; other site 71421001112 conserved gate region; other site 71421001113 putative PBP binding loops; other site 71421001114 ABC-ATPase subunit interface; other site 71421001115 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 71421001116 NMT1/THI5 like; Region: NMT1; pfam09084 71421001117 Putative transcription activator [Transcription]; Region: TenA; COG0819 71421001118 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 71421001119 ABC-ATPase subunit interface; other site 71421001120 dimer interface [polypeptide binding]; other site 71421001121 putative PBP binding regions; other site 71421001122 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 71421001123 ABC-ATPase subunit interface; other site 71421001124 dimer interface [polypeptide binding]; other site 71421001125 putative PBP binding regions; other site 71421001126 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 71421001127 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 71421001128 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 71421001129 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 71421001130 metal binding site [ion binding]; metal-binding site 71421001131 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 71421001132 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl19191 71421001133 23S rRNA m2A2503 methyltransferase; Region: TIGR00048 71421001134 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 71421001135 FeS/SAM binding site; other site 71421001136 TPR repeat; Region: TPR_11; pfam13414 71421001137 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 71421001138 binding surface 71421001139 TPR motif; other site 71421001140 TPR repeat; Region: TPR_11; pfam13414 71421001141 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 71421001142 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 71421001143 non-specific DNA binding site [nucleotide binding]; other site 71421001144 salt bridge; other site 71421001145 sequence-specific DNA binding site [nucleotide binding]; other site 71421001146 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 71421001147 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 71421001148 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 71421001149 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 71421001150 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 71421001151 dimer interface [polypeptide binding]; other site 71421001152 motif 1; other site 71421001153 active site 71421001154 motif 2; other site 71421001155 motif 3; other site 71421001156 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 71421001157 anticodon binding site; other site 71421001158 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 71421001159 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 71421001160 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2975 71421001161 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 71421001162 catalytic loop [active] 71421001163 iron binding site [ion binding]; other site 71421001164 chaperone protein HscA; Provisional; Region: hscA; PRK05183 71421001165 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 71421001166 nucleotide binding site [chemical binding]; other site 71421001167 putative NEF/HSP70 interaction site [polypeptide binding]; other site 71421001168 SBD interface [polypeptide binding]; other site 71421001169 Protein of unknown function DUF2625; Region: DUF2625; pfam10946 71421001170 co-chaperone HscB; Provisional; Region: hscB; PRK01773 71421001171 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 71421001172 HSP70 interaction site [polypeptide binding]; other site 71421001173 HSCB C-terminal oligomerization domain; Region: HSCB_C; pfam07743 71421001174 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 71421001175 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 71421001176 trimerization site [polypeptide binding]; other site 71421001177 active site 71421001178 cysteine desulfurase; Provisional; Region: PRK14012 71421001179 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 71421001180 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 71421001181 catalytic residue [active] 71421001182 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 71421001183 Rrf2 family protein; Region: rrf2_super; TIGR00738 71421001184 RNA methyltransferase, TrmH family, group 1; Region: rRNA_methyl_1; TIGR00050 71421001185 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 71421001186 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 71421001187 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 71421001188 ligand binding site [chemical binding]; other site 71421001189 translocation protein TolB; Provisional; Region: tolB; PRK01742 71421001190 TolB amino-terminal domain; Region: TolB_N; pfam04052 71421001191 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 71421001192 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 71421001193 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 71421001194 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 71421001195 TolA C-terminal; Region: TolA; pfam06519 71421001196 colicin uptake protein TolR; Provisional; Region: PRK11024 71421001197 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 71421001198 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 71421001199 active site 71421001200 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 71421001201 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cd09708 71421001202 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 71421001203 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 71421001204 Glycoprotease family; Region: Peptidase_M22; pfam00814 71421001205 outer membrane lipoprotein, Slp family; Region: slp; TIGR00752 71421001206 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 71421001207 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 71421001208 acyl-activating enzyme (AAE) consensus motif; other site 71421001209 putative AMP binding site [chemical binding]; other site 71421001210 putative active site [active] 71421001211 putative CoA binding site [chemical binding]; other site 71421001212 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 71421001213 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 71421001214 catalytic site [active] 71421001215 putative active site [active] 71421001216 putative substrate binding site [chemical binding]; other site 71421001217 Helicase and RNase D C-terminal; Region: HRDC; smart00341 71421001218 GTP-binding protein YchF; Reviewed; Region: PRK09601 71421001219 YchF GTPase; Region: YchF; cd01900 71421001220 G1 box; other site 71421001221 GTP/Mg2+ binding site [chemical binding]; other site 71421001222 Switch I region; other site 71421001223 G2 box; other site 71421001224 Switch II region; other site 71421001225 G3 box; other site 71421001226 G4 box; other site 71421001227 G5 box; other site 71421001228 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 71421001229 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 71421001230 putative active site [active] 71421001231 catalytic residue [active] 71421001232 hypothetical protein; Validated; Region: PRK01777 71421001233 Uncharacterized conserved protein [Function unknown]; Region: COG2850 71421001234 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 71421001235 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 71421001236 generic binding surface II; other site 71421001237 generic binding surface I; other site 71421001238 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 71421001239 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 71421001240 dimer interface [polypeptide binding]; other site 71421001241 ADP-ribose binding site [chemical binding]; other site 71421001242 active site 71421001243 nudix motif; other site 71421001244 metal binding site [ion binding]; metal-binding site 71421001245 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 71421001246 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 71421001247 active site 71421001248 metal binding site [ion binding]; metal-binding site 71421001249 hexamer interface [polypeptide binding]; other site 71421001250 conserved hypothetical protein; Region: TIGR00743 71421001251 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 71421001252 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 71421001253 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 71421001254 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 71421001255 DNA binding site [nucleotide binding] 71421001256 active site 71421001257 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 71421001258 putative DNA-binding cleft [nucleotide binding]; other site 71421001259 putative DNA clevage site; other site 71421001260 molecular lever; other site 71421001261 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 71421001262 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 71421001263 Ligand Binding Site [chemical binding]; other site 71421001264 TilS substrate binding domain; Region: TilS; pfam09179 71421001265 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 71421001266 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 71421001267 dimer interface [polypeptide binding]; other site 71421001268 pyridoxal binding site [chemical binding]; other site 71421001269 ATP binding site [chemical binding]; other site 71421001270 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 71421001271 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 71421001272 ABC-ATPase subunit interface; other site 71421001273 dimer interface [polypeptide binding]; other site 71421001274 putative PBP binding regions; other site 71421001275 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 71421001276 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 71421001277 Walker A/P-loop; other site 71421001278 ATP binding site [chemical binding]; other site 71421001279 Q-loop/lid; other site 71421001280 ABC transporter signature motif; other site 71421001281 Walker B; other site 71421001282 D-loop; other site 71421001283 H-loop/switch region; other site 71421001284 putative peptidase; Provisional; Region: PRK11649 71421001285 Peptidase family M23; Region: Peptidase_M23; pfam01551 71421001286 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 71421001287 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 71421001288 Walker A motif; other site 71421001289 ATP binding site [chemical binding]; other site 71421001290 Walker B motif; other site 71421001291 arginine finger; other site 71421001292 bacterial Hfq-like; Region: Hfq; cd01716 71421001293 hexamer interface [polypeptide binding]; other site 71421001294 Sm1 motif; other site 71421001295 RNA binding site [nucleotide binding]; other site 71421001296 Sm2 motif; other site 71421001297 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 71421001298 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 71421001299 RNA binding surface [nucleotide binding]; other site 71421001300 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 71421001301 active site 71421001302 ribonuclease E; Reviewed; Region: rne; PRK10811 71421001303 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 71421001304 homodimer interface [polypeptide binding]; other site 71421001305 oligonucleotide binding site [chemical binding]; other site 71421001306 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 71421001307 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 71421001308 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 71421001309 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 71421001310 substrate binding site [chemical binding]; other site 71421001311 multimerization interface [polypeptide binding]; other site 71421001312 ATP binding site [chemical binding]; other site 71421001313 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 71421001314 dimer interface [polypeptide binding]; other site 71421001315 substrate binding site [chemical binding]; other site 71421001316 ATP binding site [chemical binding]; other site 71421001317 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 71421001318 thiamine phosphate binding site [chemical binding]; other site 71421001319 active site 71421001320 pyrophosphate binding site [ion binding]; other site 71421001321 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 71421001322 metabolite-proton symporter; Region: 2A0106; TIGR00883 71421001323 putative substrate translocation pore; other site 71421001324 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 71421001325 putative protease; Provisional; Region: PRK15452 71421001326 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 71421001327 similar to acetyltransferases; contains frameshifts 71421001328 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 71421001329 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 71421001330 ATP binding site [chemical binding]; other site 71421001331 Mg++ binding site [ion binding]; other site 71421001332 motif III; other site 71421001333 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 71421001334 nucleotide binding region [chemical binding]; other site 71421001335 ATP-binding site [chemical binding]; other site 71421001336 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 71421001337 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 71421001338 S-adenosylmethionine binding site [chemical binding]; other site 71421001339 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 71421001340 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 71421001341 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 71421001342 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 71421001343 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 71421001344 domain interface [polypeptide binding]; other site 71421001345 putative active site [active] 71421001346 catalytic site [active] 71421001347 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 71421001348 domain interface [polypeptide binding]; other site 71421001349 putative active site [active] 71421001350 catalytic site [active] 71421001351 fatty acid metabolism transcriptional regulator FadR; Region: fadR_gamma; TIGR02812 71421001352 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 71421001353 DNA-binding site [nucleotide binding]; DNA binding site 71421001354 FadR C-terminal domain; Region: FadR_C; pfam07840 71421001355 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 71421001356 disulfide bond formation protein B; Provisional; Region: PRK01749 71421001357 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 71421001358 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 71421001359 glutaminase active site [active] 71421001360 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 71421001361 dimer interface [polypeptide binding]; other site 71421001362 active site 71421001363 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 71421001364 dimer interface [polypeptide binding]; other site 71421001365 active site 71421001366 histone-like DNA-binding protein HU; Region: HU; cd13831 71421001367 dimer interface [polypeptide binding]; other site 71421001368 DNA binding site [nucleotide binding] 71421001369 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 71421001370 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 71421001371 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 71421001372 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 71421001373 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 71421001374 putative NADH binding site [chemical binding]; other site 71421001375 putative active site [active] 71421001376 nudix motif; other site 71421001377 putative metal binding site [ion binding]; other site 71421001378 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 71421001379 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 71421001380 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 71421001381 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 71421001382 zinc-ribbons; Region: zinc-ribbons_6; pfam07191 71421001383 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 71421001384 active site 71421001385 DNA transformation/competence operon; under control of CRE 71421001386 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 71421001387 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 71421001388 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 71421001389 Pilus assembly protein, PilP; Region: PilP; cl19831 71421001390 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 71421001391 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 71421001392 Transglycosylase; Region: Transgly; pfam00912 71421001393 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 71421001394 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 71421001395 hypothetical protein; Validated; Region: PRK00153 71421001396 recombination protein RecR; Reviewed; Region: recR; PRK00076 71421001397 RecR protein; Region: RecR; pfam02132 71421001398 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 71421001399 putative active site [active] 71421001400 putative metal-binding site [ion binding]; other site 71421001401 tetramer interface [polypeptide binding]; other site 71421001402 DNA topoisomerase III; Provisional; Region: PRK07726 71421001403 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 71421001404 active site 71421001405 putative interdomain interaction site [polypeptide binding]; other site 71421001406 putative metal-binding site [ion binding]; other site 71421001407 putative nucleotide binding site [chemical binding]; other site 71421001408 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 71421001409 domain I; other site 71421001410 DNA binding groove [nucleotide binding] 71421001411 phosphate binding site [ion binding]; other site 71421001412 domain II; other site 71421001413 domain III; other site 71421001414 nucleotide binding site [chemical binding]; other site 71421001415 catalytic site [active] 71421001416 domain IV; other site 71421001417 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 71421001418 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 71421001419 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 71421001420 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 71421001421 active site 71421001422 P-loop; other site 71421001423 phosphorylation site [posttranslational modification] 71421001424 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 71421001425 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 71421001426 putative substrate binding site [chemical binding]; other site 71421001427 putative ATP binding site [chemical binding]; other site 71421001428 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK13779 71421001429 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 71421001430 active site 71421001431 phosphorylation site [posttranslational modification] 71421001432 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 71421001433 dimerization domain swap beta strand [polypeptide binding]; other site 71421001434 regulatory protein interface [polypeptide binding]; other site 71421001435 active site 71421001436 regulatory phosphorylation site [posttranslational modification]; other site 71421001437 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 71421001438 dimerization domain swap beta strand [polypeptide binding]; other site 71421001439 regulatory protein interface [polypeptide binding]; other site 71421001440 active site 71421001441 regulatory phosphorylation site [posttranslational modification]; other site 71421001442 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 71421001443 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 71421001444 Domain of unknown function DUF21; Region: DUF21; pfam01595 71421001445 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 71421001446 Transporter associated domain; Region: CorC_HlyC; smart01091 71421001447 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 71421001448 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 71421001449 active site 71421001450 DNA polymerase III subunit delta'; Validated; Region: PRK06871 71421001451 DNA polymerase III subunit delta'; Validated; Region: PRK08485 71421001452 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 71421001453 thymidylate kinase; Validated; Region: tmk; PRK00698 71421001454 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 71421001455 TMP-binding site; other site 71421001456 ATP-binding site [chemical binding]; other site 71421001457 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 71421001458 dimerization interface [polypeptide binding]; other site 71421001459 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 71421001460 SurA N-terminal domain; Region: SurA_N; pfam09312 71421001461 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 71421001462 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 71421001463 active site 71421001464 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 71421001465 homodimer interface [polypeptide binding]; other site 71421001466 MazG family protein; Region: mazG; TIGR00444 71421001467 metal binding site [ion binding]; metal-binding site 71421001468 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 71421001469 homodimer interface [polypeptide binding]; other site 71421001470 active site 71421001471 putative chemical substrate binding site [chemical binding]; other site 71421001472 metal binding site [ion binding]; metal-binding site 71421001473 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VirK; COG2990 71421001474 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 71421001475 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 71421001476 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 71421001477 Walker A motif; other site 71421001478 ATP binding site [chemical binding]; other site 71421001479 Walker B motif; other site 71421001480 arginine finger; other site 71421001481 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 71421001482 HemN family oxidoreductase; Provisional; Region: PRK05660 71421001483 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 71421001484 FeS/SAM binding site; other site 71421001485 HemN C-terminal domain; Region: HemN_C; pfam06969 71421001486 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 71421001487 tetramer (dimer of dimers) interface [polypeptide binding]; other site 71421001488 active site 71421001489 dimer interface [polypeptide binding]; other site 71421001490 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 71421001491 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 71421001492 ligand binding site [chemical binding]; other site 71421001493 NAD binding site [chemical binding]; other site 71421001494 tetramer interface [polypeptide binding]; other site 71421001495 catalytic site [active] 71421001496 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 71421001497 L-serine binding site [chemical binding]; other site 71421001498 ACT domain interface; other site 71421001499 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 71421001500 Aminomethyltransferase folate-binding domain; Region: GCV_T; cl01893 71421001501 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 71421001502 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 71421001503 hypothetical protein; Provisional; Region: PRK11820 71421001504 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 71421001505 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 71421001506 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 71421001507 ATP phosphoribosyltransferase; Region: HisG; pfam01634 71421001508 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 71421001509 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 71421001510 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 71421001511 NAD binding site [chemical binding]; other site 71421001512 dimerization interface [polypeptide binding]; other site 71421001513 product binding site; other site 71421001514 substrate binding site [chemical binding]; other site 71421001515 zinc binding site [ion binding]; other site 71421001516 catalytic residues [active] 71421001517 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 71421001518 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 71421001519 pyridoxal 5'-phosphate binding site [chemical binding]; other site 71421001520 homodimer interface [polypeptide binding]; other site 71421001521 catalytic residue [active] 71421001522 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 71421001523 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 71421001524 active site 71421001525 motif I; other site 71421001526 motif II; other site 71421001527 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 71421001528 putative active site pocket [active] 71421001529 4-fold oligomerization interface [polypeptide binding]; other site 71421001530 metal binding residues [ion binding]; metal-binding site 71421001531 3-fold/trimer interface [polypeptide binding]; other site 71421001532 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 71421001533 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13142 71421001534 putative active site [active] 71421001535 oxyanion strand; other site 71421001536 catalytic triad [active] 71421001537 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 71421001538 catalytic residues [active] 71421001539 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 71421001540 substrate binding site [chemical binding]; other site 71421001541 glutamase interaction surface [polypeptide binding]; other site 71421001542 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 71421001543 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 71421001544 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 71421001545 metal binding site [ion binding]; metal-binding site 71421001546 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 71421001547 aromatic amino acid transport protein; Region: araaP; TIGR00837 71421001548 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 71421001549 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 71421001550 gamma subunit interface [polypeptide binding]; other site 71421001551 epsilon subunit interface [polypeptide binding]; other site 71421001552 LBP interface [polypeptide binding]; other site 71421001553 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 71421001554 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 71421001555 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 71421001556 alpha subunit interaction interface [polypeptide binding]; other site 71421001557 Walker A motif; other site 71421001558 ATP binding site [chemical binding]; other site 71421001559 Walker B motif; other site 71421001560 inhibitor binding site; inhibition site 71421001561 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 71421001562 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 71421001563 core domain interface [polypeptide binding]; other site 71421001564 delta subunit interface [polypeptide binding]; other site 71421001565 epsilon subunit interface [polypeptide binding]; other site 71421001566 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 71421001567 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 71421001568 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 71421001569 beta subunit interaction interface [polypeptide binding]; other site 71421001570 Walker A motif; other site 71421001571 ATP binding site [chemical binding]; other site 71421001572 Walker B motif; other site 71421001573 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 71421001574 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 71421001575 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 71421001576 F0F1 ATP synthase subunit B; Provisional; Region: PRK14471; cl17192 71421001577 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 71421001578 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 71421001579 F0F1 ATP synthase subunit I; Validated; Region: PRK06099 71421001580 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 71421001581 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 71421001582 S-adenosylmethionine binding site [chemical binding]; other site 71421001583 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 71421001584 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 71421001585 motif II; other site 71421001586 Predicted membrane protein [Function unknown]; Region: COG1238 71421001587 S-ribosylhomocysteinase; Provisional; Region: PRK02260 71421001588 Integrase core domain; Region: rve; pfam00665 71421001589 Integrase core domain; Region: rve_3; cl15866 71421001590 Acid phosphatase (class B) [General function prediction only]; Region: AphA; COG3700 71421001591 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 71421001592 active site 71421001593 HslU subunit interaction site [polypeptide binding]; other site 71421001594 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 71421001595 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 71421001596 Walker A motif; other site 71421001597 ATP binding site [chemical binding]; other site 71421001598 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 71421001599 Walker B motif; other site 71421001600 arginine finger; other site 71421001601 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 71421001602 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 71421001603 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 71421001604 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 71421001605 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 71421001606 RmuC family; Region: RmuC; pfam02646 71421001607 D-ribose pyranase; Provisional; Region: PRK11797 71421001608 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 71421001609 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 71421001610 Walker A/P-loop; other site 71421001611 ATP binding site [chemical binding]; other site 71421001612 Q-loop/lid; other site 71421001613 ABC transporter signature motif; other site 71421001614 Walker B; other site 71421001615 D-loop; other site 71421001616 H-loop/switch region; other site 71421001617 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 71421001618 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 71421001619 TM-ABC transporter signature motif; other site 71421001620 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 71421001621 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 71421001622 ligand binding site [chemical binding]; other site 71421001623 dimerization interface [polypeptide binding]; other site 71421001624 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 71421001625 substrate binding site [chemical binding]; other site 71421001626 dimer interface [polypeptide binding]; other site 71421001627 ATP binding site [chemical binding]; other site 71421001628 transcriptional repressor RbsR; Provisional; Region: PRK10423 71421001629 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 71421001630 DNA binding site [nucleotide binding] 71421001631 domain linker motif; other site 71421001632 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 71421001633 dimerization interface [polypeptide binding]; other site 71421001634 ligand binding site [chemical binding]; other site 71421001635 hypothetical protein; Provisional; Region: PRK05208 71421001636 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 71421001637 1,4-Dihydroxy-2-naphthoate octaprenyltransferase; Region: PT_UbiA_UBIAD1; cd13962 71421001638 putative active site [active] 71421001639 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 71421001640 homodimer interaction site [polypeptide binding]; other site 71421001641 cofactor binding site; other site 71421001642 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 71421001643 gating phenylalanine in ion channel; other site 71421001644 Restriction endonuclease HincII; Region: Endonuc-HincII; pfam09226 71421001645 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 71421001646 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 71421001647 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 71421001648 Largest subunit (beta') of bacterial DNA-dependent RNA polymerase (RNAP), N-terminal domain; Region: RNAP_beta'_N; cd01609 71421001649 beta and beta' interface [polypeptide binding]; other site 71421001650 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 71421001651 beta' and sigma factor interface [polypeptide binding]; other site 71421001652 Zn-binding [ion binding]; other site 71421001653 active site region [active] 71421001654 catalytic site [active] 71421001655 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 71421001656 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 71421001657 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 71421001658 G-loop; other site 71421001659 DNA binding site [nucleotide binding] 71421001660 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 71421001661 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 71421001662 RPB12 interaction site [polypeptide binding]; other site 71421001663 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl19478 71421001664 RPB1 interaction site [polypeptide binding]; other site 71421001665 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 71421001666 RPB10 interaction site [polypeptide binding]; other site 71421001667 RPB11 interaction site [polypeptide binding]; other site 71421001668 RPB3 interaction site [polypeptide binding]; other site 71421001669 Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits...; Region: Prefoldin; cl09111 71421001670 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 71421001671 mRNA/rRNA interface [nucleotide binding]; other site 71421001672 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 71421001673 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 71421001674 23S rRNA interface [nucleotide binding]; other site 71421001675 L7/L12 interface [polypeptide binding]; other site 71421001676 putative thiostrepton binding site; other site 71421001677 L25 interface [polypeptide binding]; other site 71421001678 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 71421001679 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 71421001680 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 71421001681 Nucleoside recognition; Region: Gate; pfam07670 71421001682 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 71421001683 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 71421001684 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 71421001685 FeS/SAM binding site; other site 71421001686 glycine radical enzyme, YjjI family; Region: glycyl_YjjI; TIGR04040 71421001687 Pyruvate formate lyase; Region: PFL; pfam02901 71421001688 Predicted membrane protein [Function unknown]; Region: COG2364 71421001689 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 71421001690 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 71421001691 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 71421001692 putative active site [active] 71421001693 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 71421001694 active site 71421001695 intersubunit interface [polypeptide binding]; other site 71421001696 zinc binding site [ion binding]; other site 71421001697 Na+ binding site [ion binding]; other site 71421001698 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 71421001699 substrate binding site [chemical binding]; other site 71421001700 hinge regions; other site 71421001701 ADP binding site [chemical binding]; other site 71421001702 catalytic site [active] 71421001703 Ribonuclease I [Translation, ribosomal structure and biogenesis]; Region: Rna; COG3719 71421001704 CAS motifs; other site 71421001705 active site 71421001706 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 71421001707 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 71421001708 aromatic amino acid transport protein; Region: araaP; TIGR00837 71421001709 thymidine kinase; Provisional; Region: PRK04296 71421001710 UGMP family protein; Validated; Region: PRK09604 71421001711 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 71421001712 nucleotide binding site [chemical binding]; other site 71421001713 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 71421001714 DNA primase; Validated; Region: dnaG; PRK05667 71421001715 CHC2 zinc finger; Region: zf-CHC2; pfam01807 71421001716 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 71421001717 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 71421001718 active site 71421001719 metal binding site [ion binding]; metal-binding site 71421001720 interdomain interaction site; other site 71421001721 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 71421001722 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 71421001723 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 71421001724 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 71421001725 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 71421001726 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 71421001727 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 71421001728 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 71421001729 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 71421001730 DNA binding residues [nucleotide binding] 71421001731 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 71421001732 Aspartase; Region: Aspartase; cd01357 71421001733 active sites [active] 71421001734 tetramer interface [polypeptide binding]; other site 71421001735 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 71421001736 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 71421001737 G1 box; other site 71421001738 GTP/Mg2+ binding site [chemical binding]; other site 71421001739 G2 box; other site 71421001740 Switch I region; other site 71421001741 G3 box; other site 71421001742 Switch II region; other site 71421001743 G4 box; other site 71421001744 G5 box; other site 71421001745 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 71421001746 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 71421001747 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 71421001748 dimer interface [polypeptide binding]; other site 71421001749 catalytic residues [active] 71421001750 urease subunit alpha; Reviewed; Region: ureC; PRK13207 71421001751 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 71421001752 subunit interactions [polypeptide binding]; other site 71421001753 active site 71421001754 flap region; other site 71421001755 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 71421001756 gamma-beta subunit interface [polypeptide binding]; other site 71421001757 alpha-beta subunit interface [polypeptide binding]; other site 71421001758 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 71421001759 alpha-gamma subunit interface [polypeptide binding]; other site 71421001760 beta-gamma subunit interface [polypeptide binding]; other site 71421001761 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 71421001762 oligomerisation interface [polypeptide binding]; other site 71421001763 mobile loop; other site 71421001764 roof hairpin; other site 71421001765 chaperonin GroEL; Reviewed; Region: groEL; PRK12850 71421001766 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 71421001767 ring oligomerisation interface [polypeptide binding]; other site 71421001768 ATP/Mg binding site [chemical binding]; other site 71421001769 stacking interactions; other site 71421001770 hinge regions; other site 71421001771 ribosomal protein L9; Region: L9; TIGR00158 71421001772 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 71421001773 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 71421001774 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 71421001775 primosomal replication protein N; Provisional; Region: PRK02801 71421001776 generic binding surface II; other site 71421001777 generic binding surface I; other site 71421001778 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 71421001779 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 71421001780 rRNA binding site [nucleotide binding]; other site 71421001781 predicted 30S ribosome binding site; other site 71421001782 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 71421001783 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 71421001784 bis(5'-nucleosyl)-tetraphosphatase (symmetrical); Region: apaH; TIGR00668 71421001785 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 71421001786 active site 71421001787 metal binding site [ion binding]; metal-binding site 71421001788 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 71421001789 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 71421001790 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 71421001791 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 71421001792 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 71421001793 Predicted membrane protein [Function unknown]; Region: COG3759 71421001794 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 71421001795 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 71421001796 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 71421001797 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 71421001798 active site 71421001799 OPT oligopeptide transporter protein; Region: OPT; cl14607 71421001800 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 71421001801 RNA binding surface [nucleotide binding]; other site 71421001802 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 71421001803 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 71421001804 dimerization interface [polypeptide binding]; other site 71421001805 putative DNA binding site [nucleotide binding]; other site 71421001806 putative Zn2+ binding site [ion binding]; other site 71421001807 AsnC family; Region: AsnC_trans_reg; pfam01037 71421001808 aspartate--ammonia ligase, AsnA-type; Region: asnA; TIGR00669 71421001809 motif 1; other site 71421001810 dimer interface [polypeptide binding]; other site 71421001811 active site 71421001812 motif 2; other site 71421001813 motif 3; other site 71421001814 phosphoglycolate phosphatase; Provisional; Region: PRK13222 71421001815 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 71421001816 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 71421001817 motif II; other site 71421001818 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 71421001819 substrate binding site [chemical binding]; other site 71421001820 hexamer interface [polypeptide binding]; other site 71421001821 metal binding site [ion binding]; metal-binding site 71421001822 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 71421001823 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 71421001824 ATP binding site [chemical binding]; other site 71421001825 Mg2+ binding site [ion binding]; other site 71421001826 G-X-G motif; other site 71421001827 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 71421001828 anchoring element; other site 71421001829 dimer interface [polypeptide binding]; other site 71421001830 ATP binding site [chemical binding]; other site 71421001831 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 71421001832 active site 71421001833 putative metal-binding site [ion binding]; other site 71421001834 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 71421001835 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 71421001836 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 71421001837 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 71421001838 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 71421001839 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 71421001840 RNA binding site [nucleotide binding]; other site 71421001841 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 71421001842 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 71421001843 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 71421001844 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 71421001845 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 71421001846 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 71421001847 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 71421001848 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 71421001849 dimerization interface [polypeptide binding]; other site 71421001850 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 71421001851 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 71421001852 catalytic triad [active] 71421001853 dimer interface [polypeptide binding]; other site 71421001854 Glutaredoxin (GRX) family, PRX5 hybrid subfamily; composed of hybrid proteins containing peroxiredoxin (PRX) and GRX domains, which is found in some pathogenic bacteria and cyanobacteria. PRXs are thiol-specific antioxidant (TSA) proteins that confer a...; Region: GRX_hybridPRX5; cd03029 71421001855 GSH binding site [chemical binding]; other site 71421001856 catalytic residues [active] 71421001857 hypothetical protein; Provisional; Region: PRK02119 71421001858 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 71421001859 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 71421001860 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 71421001861 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 71421001862 YheO-like PAS domain; Region: PAS_6; pfam08348 71421001863 HTH domain; Region: HTH_22; pfam13309 71421001864 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 71421001865 sulfur relay protein TusC; Validated; Region: PRK00211 71421001866 Uncharacterized conserved protein involved in oxidation of intracellular sulfur [Inorganic ion transport and metabolism]; Region: DsrH; COG2168 71421001867 elongation factor Tu; Reviewed; Region: PRK00049 71421001868 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 71421001869 G1 box; other site 71421001870 GEF interaction site [polypeptide binding]; other site 71421001871 GTP/Mg2+ binding site [chemical binding]; other site 71421001872 Switch I region; other site 71421001873 G2 box; other site 71421001874 G3 box; other site 71421001875 Switch II region; other site 71421001876 G4 box; other site 71421001877 G5 box; other site 71421001878 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 71421001879 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 71421001880 Antibiotic Binding Site [chemical binding]; other site 71421001881 elongation factor G; Reviewed; Region: PRK00007 71421001882 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 71421001883 G1 box; other site 71421001884 putative GEF interaction site [polypeptide binding]; other site 71421001885 GTP/Mg2+ binding site [chemical binding]; other site 71421001886 Switch I region; other site 71421001887 G2 box; other site 71421001888 G3 box; other site 71421001889 Switch II region; other site 71421001890 G4 box; other site 71421001891 G5 box; other site 71421001892 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 71421001893 Elongation Factor G, domain II; Region: EFG_II; pfam14492 71421001894 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 71421001895 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 71421001896 30S ribosomal protein S7; Validated; Region: PRK05302 71421001897 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 71421001898 S17 interaction site [polypeptide binding]; other site 71421001899 S8 interaction site; other site 71421001900 16S rRNA interaction site [nucleotide binding]; other site 71421001901 streptomycin interaction site [chemical binding]; other site 71421001902 23S rRNA interaction site [nucleotide binding]; other site 71421001903 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 71421001904 contains origin of replication 71421001905 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 71421001906 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 71421001907 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 71421001908 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 71421001909 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 71421001910 active site 71421001911 metal binding site [ion binding]; metal-binding site 71421001912 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 71421001913 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 71421001914 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 71421001915 putative metal binding site [ion binding]; other site 71421001916 dimer interface [polypeptide binding]; other site 71421001917 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 71421001918 active site pocket [active] 71421001919 oxyanion hole [active] 71421001920 catalytic triad [active] 71421001921 active site nucleophile [active] 71421001922 allantoate amidohydrolase; Reviewed; Region: PRK09290 71421001923 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 71421001924 active site 71421001925 metal binding site [ion binding]; metal-binding site 71421001926 dimer interface [polypeptide binding]; other site 71421001927 Positive regulator of sigma E activity [Signal transduction mechanisms]; Region: RseC; COG3086 71421001928 putrescine transporter; Provisional; Region: potE; PRK10655 71421001929 ornithine decarboxylase; Provisional; Region: PRK13578 71421001930 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 71421001931 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 71421001932 homodimer interface [polypeptide binding]; other site 71421001933 pyridoxal 5'-phosphate binding site [chemical binding]; other site 71421001934 catalytic residue [active] 71421001935 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 71421001936 Predicted membrane protein [Function unknown]; Region: COG1288 71421001937 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 71421001938 putative substrate binding site [chemical binding]; other site 71421001939 nucleotide binding site [chemical binding]; other site 71421001940 nucleotide binding site [chemical binding]; other site 71421001941 homodimer interface [polypeptide binding]; other site 71421001942 ornithine carbamoyltransferase; Provisional; Region: PRK01713 71421001943 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 71421001944 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 71421001945 putative hydrolase; Provisional; Region: PRK10976 71421001946 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 71421001947 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 71421001948 active site 71421001949 motif I; other site 71421001950 motif II; other site 71421001951 CrcB-like protein; Region: CRCB; cl09114 71421001952 recombination regulator RecX; Reviewed; Region: recX; PRK00117 71421001953 recombinase A; Provisional; Region: recA; PRK09354 71421001954 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 71421001955 hexamer interface [polypeptide binding]; other site 71421001956 Walker A motif; other site 71421001957 ATP binding site [chemical binding]; other site 71421001958 Walker B motif; other site 71421001959 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 71421001960 TfoX C-terminal domain; Region: TfoX_C; pfam04994 71421001961 similar to PsiE; contains frameshifts 71421001962 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 71421001963 HemY protein N-terminus; Region: HemY_N; pfam07219 71421001964 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 71421001965 Adenylate cyclase [Nucleotide transport and metabolism]; Region: CyaA; COG3072 71421001966 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 71421001967 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 71421001968 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 71421001969 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 71421001970 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 71421001971 serine acetyltransferase; Provisional; Region: cysE; PRK11132 71421001972 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 71421001973 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 71421001974 trimer interface [polypeptide binding]; other site 71421001975 active site 71421001976 substrate binding site [chemical binding]; other site 71421001977 CoA binding site [chemical binding]; other site 71421001978 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 71421001979 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 71421001980 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 71421001981 shikimate binding site; other site 71421001982 NAD(P) binding site [chemical binding]; other site 71421001983 anion transporter; Region: dass; TIGR00785 71421001984 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 71421001985 transmembrane helices; other site 71421001986 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 71421001987 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 71421001988 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 71421001989 homodimer interface [polypeptide binding]; other site 71421001990 NADP binding site [chemical binding]; other site 71421001991 substrate binding site [chemical binding]; other site 71421001992 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 71421001993 L-fucose:H+ symporter permease; Region: fucP; TIGR00885 71421001994 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 71421001995 putative substrate translocation pore; other site 71421001996 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 71421001997 intersubunit interface [polypeptide binding]; other site 71421001998 active site 71421001999 Zn2+ binding site [ion binding]; other site 71421002000 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 71421002001 L-fuculokinase; Region: fuculo_kin_coli; TIGR02628 71421002002 L-fuculose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_FK; cd07773 71421002003 putative N- and C-terminal domain interface [polypeptide binding]; other site 71421002004 putative active site [active] 71421002005 putative MgATP binding site [chemical binding]; other site 71421002006 putative catalytic site [active] 71421002007 metal binding site [ion binding]; metal-binding site 71421002008 putative carbohydrate binding site [chemical binding]; other site 71421002009 L-fucose isomerase; Provisional; Region: fucI; PRK10991 71421002010 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 71421002011 hexamer (dimer of trimers) interface [polypeptide binding]; other site 71421002012 trimer interface [polypeptide binding]; other site 71421002013 substrate binding site [chemical binding]; other site 71421002014 Mn binding site [ion binding]; other site 71421002015 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 71421002016 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 71421002017 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 71421002018 ATP-dependent helicase HepA; Validated; Region: PRK04914 71421002019 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 71421002020 ATP binding site [chemical binding]; other site 71421002021 putative Mg++ binding site [ion binding]; other site 71421002022 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 71421002023 nucleotide binding region [chemical binding]; other site 71421002024 ATP-binding site [chemical binding]; other site 71421002025 RNA polymerase recycling family C-terminal; Region: RapA_C; pfam12137 71421002026 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 71421002027 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 71421002028 active site 71421002029 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 71421002030 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 71421002031 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 71421002032 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 71421002033 lipoprotein, YaeC family; Region: TIGR00363 71421002034 similar to ABC transporter permease component; this region contains an authentic frame shift and is not the result of a sequencing artifact; similar to SP:P31547 PID:1208965 PID:303561 GB:U00096 PID:1552774 71421002035 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 71421002036 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 71421002037 Walker A/P-loop; other site 71421002038 ATP binding site [chemical binding]; other site 71421002039 Q-loop/lid; other site 71421002040 ABC transporter signature motif; other site 71421002041 Walker B; other site 71421002042 D-loop; other site 71421002043 H-loop/switch region; other site 71421002044 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 71421002045 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 71421002046 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 71421002047 active site 71421002048 motif I; other site 71421002049 motif II; other site 71421002050 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 71421002051 active site 71421002052 catalytic residues [active] 71421002053 metal binding site [ion binding]; metal-binding site 71421002054 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 71421002055 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 71421002056 putative active site [active] 71421002057 substrate binding site [chemical binding]; other site 71421002058 putative cosubstrate binding site; other site 71421002059 catalytic site [active] 71421002060 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 71421002061 substrate binding site [chemical binding]; other site 71421002062 16S rRNA methyltransferase B; Provisional; Region: PRK10901 71421002063 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 71421002064 putative RNA binding site [nucleotide binding]; other site 71421002065 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 71421002066 S-adenosylmethionine binding site [chemical binding]; other site 71421002067 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 71421002068 TrkA-N domain; Region: TrkA_N; pfam02254 71421002069 TrkA-C domain; Region: TrkA_C; pfam02080 71421002070 TrkA-N domain; Region: TrkA_N; pfam02254 71421002071 TrkA-C domain; Region: TrkA_C; pfam02080 71421002072 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 71421002073 Uncharacterized conserved protein [Function unknown]; Region: COG2938 71421002074 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 71421002075 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 71421002076 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 71421002077 DNA binding residues [nucleotide binding] 71421002078 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 71421002079 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 71421002080 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 71421002081 anti-sigma E factor; Provisional; Region: rseB; PRK09455 71421002082 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 71421002083 ATP-binding site [chemical binding]; other site 71421002084 CoA-binding site [chemical binding]; other site 71421002085 Mg2+-binding site [ion binding]; other site 71421002086 elongation factor Tu; Reviewed; Region: PRK00049 71421002087 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 71421002088 G1 box; other site 71421002089 GEF interaction site [polypeptide binding]; other site 71421002090 GTP/Mg2+ binding site [chemical binding]; other site 71421002091 Switch I region; other site 71421002092 G2 box; other site 71421002093 G3 box; other site 71421002094 Switch II region; other site 71421002095 G4 box; other site 71421002096 G5 box; other site 71421002097 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 71421002098 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 71421002099 Antibiotic Binding Site [chemical binding]; other site 71421002100 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 71421002101 dimer interface [polypeptide binding]; other site 71421002102 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 71421002103 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 71421002104 FMN binding site [chemical binding]; other site 71421002105 active site 71421002106 catalytic residues [active] 71421002107 substrate binding site [chemical binding]; other site 71421002108 PT repeat; Region: PT; pfam04886 71421002109 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 71421002110 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 71421002111 N-terminal plug; other site 71421002112 ligand-binding site [chemical binding]; other site 71421002113 conserved hypothetical protein; Region: TIGR00743 71421002114 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK00927 71421002115 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 71421002116 active site 71421002117 HIGH motif; other site 71421002118 dimer interface [polypeptide binding]; other site 71421002119 KMSKS motif; other site 71421002120 Uncharacterized protein involved in purine metabolism [General function prediction only]; Region: COG2915 71421002121 adenylosuccinate lyase; Provisional; Region: PRK09285 71421002122 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 71421002123 tetramer interface [polypeptide binding]; other site 71421002124 active site 71421002125 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 71421002126 23S rRNA interface [nucleotide binding]; other site 71421002127 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 71421002128 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 71421002129 core dimer interface [polypeptide binding]; other site 71421002130 peripheral dimer interface [polypeptide binding]; other site 71421002131 L10 interface [polypeptide binding]; other site 71421002132 L11 interface [polypeptide binding]; other site 71421002133 putative EF-Tu interaction site [polypeptide binding]; other site 71421002134 putative EF-G interaction site [polypeptide binding]; other site 71421002135 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 71421002136 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 71421002137 Substrate binding site; other site 71421002138 Mg++ binding site; other site 71421002139 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 71421002140 active site 71421002141 substrate binding site [chemical binding]; other site 71421002142 CoA binding site [chemical binding]; other site 71421002143 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 71421002144 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 71421002145 molybdopterin cofactor binding site [chemical binding]; other site 71421002146 substrate binding site [chemical binding]; other site 71421002147 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 71421002148 molybdopterin cofactor binding site; other site 71421002149 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 71421002150 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 71421002151 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 71421002152 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 71421002153 Putative lysophospholipase; Region: Hydrolase_4; cl19140 71421002154 Putative lysophospholipase; Region: Hydrolase_4; cl19140 71421002155 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 71421002156 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 71421002157 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 71421002158 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 71421002159 MgtC family; Region: MgtC; pfam02308 71421002160 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 71421002161 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 71421002162 Part of AAA domain; Region: AAA_19; pfam13245 71421002163 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 71421002164 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5645 71421002165 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 71421002166 active site 71421002167 (T/H)XGH motif; other site 71421002168 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 71421002169 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 71421002170 Glycosyl transferases group 1; Region: Glycos_transf_1; pfam00534 71421002171 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 71421002172 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 71421002173 putative metal binding site; other site 71421002174 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 71421002175 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 71421002176 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 71421002177 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 71421002178 shikimate binding site; other site 71421002179 NAD(P) binding site [chemical binding]; other site 71421002180 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 71421002181 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 71421002182 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 71421002183 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 71421002184 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 71421002185 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 71421002186 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 71421002187 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 71421002188 Walker A/P-loop; other site 71421002189 ATP binding site [chemical binding]; other site 71421002190 Q-loop/lid; other site 71421002191 ABC transporter signature motif; other site 71421002192 ABC transporter; Region: ABC_tran_2; pfam12848 71421002193 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 71421002194 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 71421002195 non-specific DNA binding site [nucleotide binding]; other site 71421002196 salt bridge; other site 71421002197 sequence-specific DNA binding site [nucleotide binding]; other site 71421002198 Phage-related protein [Function unknown]; Region: COG4679 71421002199 PT repeat; Region: PT; pfam04886 71421002200 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 71421002201 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 71421002202 N-terminal plug; other site 71421002203 ligand-binding site [chemical binding]; other site 71421002204 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 71421002205 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 71421002206 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 71421002207 Walker A/P-loop; other site 71421002208 ATP binding site [chemical binding]; other site 71421002209 Q-loop/lid; other site 71421002210 ABC transporter signature motif; other site 71421002211 Walker B; other site 71421002212 D-loop; other site 71421002213 H-loop/switch region; other site 71421002214 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 71421002215 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 71421002216 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 71421002217 Walker A/P-loop; other site 71421002218 ATP binding site [chemical binding]; other site 71421002219 Q-loop/lid; other site 71421002220 ABC transporter signature motif; other site 71421002221 Walker B; other site 71421002222 D-loop; other site 71421002223 H-loop/switch region; other site 71421002224 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 71421002225 HipA-like N-terminal domain; Region: HipA_N; pfam07805 71421002226 HipA-like C-terminal domain; Region: HipA_C; pfam07804 71421002227 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 71421002228 HipA N-terminal domain; Region: Couple_hipA; pfam13657 71421002229 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 71421002230 non-specific DNA binding site [nucleotide binding]; other site 71421002231 salt bridge; other site 71421002232 sequence-specific DNA binding site [nucleotide binding]; other site 71421002233 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 71421002234 putative active site [active] 71421002235 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3074 71421002236 FMN-binding protein MioC; Provisional; Region: PRK09004 71421002237 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 71421002238 putative active site [active] 71421002239 dimerization interface [polypeptide binding]; other site 71421002240 putative tRNAtyr binding site [nucleotide binding]; other site 71421002241 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 71421002242 homotrimer interaction site [polypeptide binding]; other site 71421002243 zinc binding site [ion binding]; other site 71421002244 CDP-binding sites; other site 71421002245 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 71421002246 substrate binding site; other site 71421002247 dimer interface; other site 71421002248 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 71421002249 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 71421002250 active site 71421002251 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 71421002252 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 71421002253 metal binding site [ion binding]; metal-binding site 71421002254 dimer interface [polypeptide binding]; other site 71421002255 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 71421002256 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 71421002257 active site 71421002258 Int/Topo IB signature motif; other site 71421002259 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 71421002260 substrate binding site [chemical binding]; other site 71421002261 dimer interface [polypeptide binding]; other site 71421002262 catalytic triad [active] 71421002263 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 71421002264 active site residue [active] 71421002265 rarD protein; Region: rarD; TIGR00688 71421002266 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 71421002267 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 71421002268 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 71421002269 putative dimerization interface [polypeptide binding]; other site 71421002270 ketol-acid reductoisomerase; Validated; Region: PRK05225 71421002271 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 71421002272 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 71421002273 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 71421002274 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 71421002275 Cysteine-rich domain; Region: CCG; pfam02754 71421002276 Cysteine-rich domain; Region: CCG; pfam02754 71421002277 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; COG3075 71421002278 FAD binding domain; Region: FAD_binding_2; pfam00890 71421002279 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 71421002280 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 71421002281 glycerol-3-phosphate transporter; Region: glpT; TIGR00712 71421002282 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 71421002283 putative substrate translocation pore; other site 71421002284 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 71421002285 EamA-like transporter family; Region: EamA; pfam00892 71421002286 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 71421002287 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 71421002288 active site 71421002289 catalytic site [active] 71421002290 metal binding site [ion binding]; metal-binding site 71421002291 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 71421002292 amphipathic channel; other site 71421002293 Asn-Pro-Ala signature motifs; other site 71421002294 glycerol kinase; Provisional; Region: glpK; PRK00047 71421002295 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 71421002296 N- and C-terminal domain interface [polypeptide binding]; other site 71421002297 active site 71421002298 MgATP binding site [chemical binding]; other site 71421002299 catalytic site [active] 71421002300 metal binding site [ion binding]; metal-binding site 71421002301 glycerol binding site [chemical binding]; other site 71421002302 homotetramer interface [polypeptide binding]; other site 71421002303 homodimer interface [polypeptide binding]; other site 71421002304 FBP binding site [chemical binding]; other site 71421002305 protein IIAGlc interface [polypeptide binding]; other site 71421002306 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 71421002307 active site 71421002308 Predicted secreted acid phosphatase [General function prediction only]; Region: COG2503 71421002309 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 71421002310 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 71421002311 probable active site [active] 71421002312 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 71421002313 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 71421002314 Family of unknown function (DUF490); Region: DUF490; pfam04357 71421002315 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 71421002316 Surface antigen; Region: Bac_surface_Ag; pfam01103 71421002317 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl19519 71421002318 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 71421002319 RNase E inhibitor protein; Provisional; Region: PRK11191 71421002320 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 71421002321 Permutation of conserved domain; other site 71421002322 active site 71421002323 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 71421002324 Predicted membrane protein [Function unknown]; Region: COG1238 71421002325 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 71421002326 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 71421002327 Peptidase family M23; Region: Peptidase_M23; pfam01551 71421002328 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 71421002329 MutS domain I; Region: MutS_I; pfam01624 71421002330 MutS domain II; Region: MutS_II; pfam05188 71421002331 MutS domain III; Region: MutS_III; pfam05192 71421002332 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 71421002333 Walker A/P-loop; other site 71421002334 ATP binding site [chemical binding]; other site 71421002335 Q-loop/lid; other site 71421002336 ABC transporter signature motif; other site 71421002337 Walker B; other site 71421002338 D-loop; other site 71421002339 H-loop/switch region; other site 71421002340 selenocysteine synthase; Provisional; Region: PRK04311 71421002341 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 71421002342 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 71421002343 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 71421002344 catalytic residue [active] 71421002345 selenocysteine-specific elongation factor SelB; Region: selB; TIGR00475 71421002346 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 71421002347 G1 box; other site 71421002348 putative GEF interaction site [polypeptide binding]; other site 71421002349 GTP/Mg2+ binding site [chemical binding]; other site 71421002350 Switch I region; other site 71421002351 G2 box; other site 71421002352 G3 box; other site 71421002353 Switch II region; other site 71421002354 G4 box; other site 71421002355 G5 box; other site 71421002356 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 71421002357 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 71421002358 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 71421002359 DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in RGS (regulator of G-protein signaling) proteins of the subfamily R7. This subgroup contains RGS7, RGS6, RGS9 and RGS11. They share a common domain architecture, containing, beside the RGS domain; Region: DEP_RGS7-like; cd04450 71421002360 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 71421002361 RelB antitoxin; Region: RelB; pfam04221 71421002362 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 71421002363 PT repeat; Region: PT; pfam04886 71421002364 PT repeat; Region: PT; pfam04886 71421002365 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 71421002366 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 71421002367 trigger factor; Provisional; Region: tig; PRK01490 71421002368 Bacterial trigger factor protein (TF); Region: Trigger_N; pfam05697 71421002369 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 71421002370 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 71421002371 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 71421002372 oligomer interface [polypeptide binding]; other site 71421002373 active site residues [active] 71421002374 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 71421002375 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 71421002376 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 71421002377 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 71421002378 Walker A motif; other site 71421002379 ATP binding site [chemical binding]; other site 71421002380 Walker B motif; other site 71421002381 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 71421002382 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 71421002383 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 71421002384 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 71421002385 putative homodimer interface [polypeptide binding]; other site 71421002386 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 71421002387 heterodimer interface [polypeptide binding]; other site 71421002388 homodimer interface [polypeptide binding]; other site 71421002389 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 71421002390 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 71421002391 homotrimer interaction site [polypeptide binding]; other site 71421002392 putative active site [active] 71421002393 heat shock protein HtpX; Provisional; Region: PRK05457 71421002394 sulfur transfer protein SirA; Reviewed; Region: PRK00299 71421002395 CPxP motif; other site 71421002396 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 71421002397 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 71421002398 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 71421002399 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 71421002400 Cation transport protein; Region: TrkH; cl17365 71421002401 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3078 71421002402 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 71421002403 transcriptional regulator NarP; Provisional; Region: PRK10403 71421002404 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 71421002405 active site 71421002406 phosphorylation site [posttranslational modification] 71421002407 intermolecular recognition site; other site 71421002408 dimerization interface [polypeptide binding]; other site 71421002409 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 71421002410 DNA binding residues [nucleotide binding] 71421002411 dimerization interface [polypeptide binding]; other site 71421002412 diaminopimelate decarboxylase; Region: lysA; TIGR01048 71421002413 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 71421002414 active site 71421002415 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 71421002416 substrate binding site [chemical binding]; other site 71421002417 catalytic residues [active] 71421002418 dimer interface [polypeptide binding]; other site 71421002419 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 71421002420 putative iron binding site [ion binding]; other site 71421002421 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 71421002422 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 71421002423 ATP binding site [chemical binding]; other site 71421002424 putative Mg++ binding site [ion binding]; other site 71421002425 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 71421002426 nucleotide binding region [chemical binding]; other site 71421002427 ATP-binding site [chemical binding]; other site 71421002428 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 71421002429 Helicase and RNase D C-terminal; Region: HRDC; smart00341 71421002430 prolyl-tRNA synthetase; Provisional; Region: PRK09194 71421002431 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 71421002432 dimer interface [polypeptide binding]; other site 71421002433 motif 1; other site 71421002434 active site 71421002435 motif 2; other site 71421002436 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 71421002437 putative deacylase active site [active] 71421002438 motif 3; other site 71421002439 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 71421002440 anticodon binding site; other site 71421002441 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 71421002442 OstA-like protein; Region: OstA; pfam03968 71421002443 Organic solvent tolerance protein; Region: OstA_C; pfam04453 71421002444 similar to sufI; contains frameshifts 71421002445 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 71421002446 putative acyl-acceptor binding pocket; other site 71421002447 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 71421002448 putative active site [active] 71421002449 putative metal binding site [ion binding]; other site 71421002450 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 71421002451 Na2 binding site [ion binding]; other site 71421002452 putative substrate binding site 1 [chemical binding]; other site 71421002453 Na binding site 1 [ion binding]; other site 71421002454 putative substrate binding site 2 [chemical binding]; other site 71421002455 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 71421002456 PYR/PP interface [polypeptide binding]; other site 71421002457 dimer interface [polypeptide binding]; other site 71421002458 TPP binding site [chemical binding]; other site 71421002459 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 71421002460 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 71421002461 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 71421002462 threonine dehydratase; Reviewed; Region: PRK09224 71421002463 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 71421002464 tetramer interface [polypeptide binding]; other site 71421002465 catalytic residue [active] 71421002466 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 71421002467 putative Ile/Val binding site [chemical binding]; other site 71421002468 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 71421002469 putative Ile/Val binding site [chemical binding]; other site 71421002470 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 71421002471 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 71421002472 putative active site [active] 71421002473 putative PHP Thumb interface [polypeptide binding]; other site 71421002474 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 71421002475 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 71421002476 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 71421002477 generic binding surface II; other site 71421002478 generic binding surface I; other site 71421002479 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 71421002480 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 71421002481 active site 71421002482 substrate binding site [chemical binding]; other site 71421002483 metal binding site [ion binding]; metal-binding site 71421002484 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 71421002485 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 71421002486 SecA binding site; other site 71421002487 Preprotein binding site; other site 71421002488 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 71421002489 active site residue [active] 71421002490 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 71421002491 active site 71421002492 homotetramer interface [polypeptide binding]; other site 71421002493 homodimer interface [polypeptide binding]; other site 71421002494 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 71421002495 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 71421002496 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 71421002497 Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]; Region: PlsB; COG2937 71421002498 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 71421002499 putative acyl-acceptor binding pocket; other site 71421002500 LexA repressor; Validated; Region: PRK00215 71421002501 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 71421002502 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 71421002503 Catalytic site [active] 71421002504 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 71421002505 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 71421002506 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 71421002507 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 71421002508 dimer interface [polypeptide binding]; other site 71421002509 catalytic triad [active] 71421002510 peroxidatic and resolving cysteines [active] 71421002511 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 71421002512 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 71421002513 dimerization interface [polypeptide binding]; other site 71421002514 ATP binding site [chemical binding]; other site 71421002515 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 71421002516 dimerization interface [polypeptide binding]; other site 71421002517 ATP binding site [chemical binding]; other site 71421002518 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 71421002519 putative active site [active] 71421002520 catalytic triad [active] 71421002521 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 71421002522 N-acetylmuramic acid 6-phosphate etherase; Region: TIGR00274 71421002523 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 71421002524 putative active site [active] 71421002525 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 71421002526 NodB motif; other site 71421002527 putative active site [active] 71421002528 putative catalytic site [active] 71421002529 Zn binding site [ion binding]; other site 71421002530 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 71421002531 Peptidase family M23; Region: Peptidase_M23; pfam01551 71421002532 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 71421002533 catalytic core [active] 71421002534 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 71421002535 adenine DNA glycosylase; Provisional; Region: PRK10880 71421002536 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 71421002537 minor groove reading motif; other site 71421002538 helix-hairpin-helix signature motif; other site 71421002539 substrate binding pocket [chemical binding]; other site 71421002540 active site 71421002541 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 71421002542 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 71421002543 DNA binding and oxoG recognition site [nucleotide binding] 71421002544 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2924 71421002545 murein transglycosylase C; Provisional; Region: mltC; PRK11671 71421002546 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 71421002547 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 71421002548 N-acetyl-D-glucosamine binding site [chemical binding]; other site 71421002549 catalytic residue [active] 71421002550 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 71421002551 active site 71421002552 metal binding site [ion binding]; metal-binding site 71421002553 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 71421002554 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 71421002555 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 71421002556 active site 71421002557 (T/H)XGH motif; other site 71421002558 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 71421002559 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK01792 71421002560 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 71421002561 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 71421002562 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 71421002563 S-adenosylmethionine binding site [chemical binding]; other site 71421002564 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 71421002565 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 71421002566 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 71421002567 P loop; other site 71421002568 GTP binding site [chemical binding]; other site 71421002569 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 71421002570 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 71421002571 Walker A/P-loop; other site 71421002572 ATP binding site [chemical binding]; other site 71421002573 Q-loop/lid; other site 71421002574 ABC transporter signature motif; other site 71421002575 Walker B; other site 71421002576 D-loop; other site 71421002577 H-loop/switch region; other site 71421002578 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 71421002579 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 71421002580 putative acyltransferase; Provisional; Region: PRK05790 71421002581 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 71421002582 dimer interface [polypeptide binding]; other site 71421002583 active site 71421002584 Short chain fatty acid transporter; Region: SCFA_trans; pfam02667 71421002585 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 71421002586 acetyl-CoA:acetoacetyl-CoA transferase subunit alpha; Provisional; Region: PRK09920 71421002587 Transcriptional regulator [Transcription]; Region: LysR; COG0583 71421002588 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 71421002589 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 71421002590 dimerization interface [polypeptide binding]; other site 71421002591 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 71421002592 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 71421002593 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 71421002594 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 71421002595 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 71421002596 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 71421002597 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 71421002598 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 71421002599 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 71421002600 protein-rRNA interface [nucleotide binding]; other site 71421002601 putative translocon binding site; other site 71421002602 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 71421002603 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 71421002604 G-X-X-G motif; other site 71421002605 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 71421002606 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 71421002607 23S rRNA interface [nucleotide binding]; other site 71421002608 5S rRNA interface [nucleotide binding]; other site 71421002609 putative antibiotic binding site [chemical binding]; other site 71421002610 L25 interface [polypeptide binding]; other site 71421002611 L27 interface [polypeptide binding]; other site 71421002612 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 71421002613 23S rRNA interface [nucleotide binding]; other site 71421002614 putative translocon interaction site; other site 71421002615 signal recognition particle (SRP54) interaction site; other site 71421002616 L23 interface [polypeptide binding]; other site 71421002617 trigger factor interaction site; other site 71421002618 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 71421002619 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 71421002620 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 71421002621 RNA binding site [nucleotide binding]; other site 71421002622 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 71421002623 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 71421002624 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 71421002625 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 71421002626 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 71421002627 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 71421002628 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 71421002629 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 71421002630 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 71421002631 5S rRNA interface [nucleotide binding]; other site 71421002632 L27 interface [polypeptide binding]; other site 71421002633 23S rRNA interface [nucleotide binding]; other site 71421002634 L5 interface [polypeptide binding]; other site 71421002635 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 71421002636 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 71421002637 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 71421002638 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 71421002639 23S rRNA binding site [nucleotide binding]; other site 71421002640 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 71421002641 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 71421002642 SecY translocase; Region: SecY; pfam00344 71421002643 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 71421002644 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 71421002645 30S ribosomal protein S11; Validated; Region: PRK05309 71421002646 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 71421002647 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 71421002648 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 71421002649 RNA binding surface [nucleotide binding]; other site 71421002650 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 71421002651 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 71421002652 alphaNTD homodimer interface [polypeptide binding]; other site 71421002653 alphaNTD - beta interaction site [polypeptide binding]; other site 71421002654 alphaNTD - beta' interaction site [polypeptide binding]; other site 71421002655 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 71421002656 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 71421002657 similar to Fe-S oxidoreductase; this region contains an authentic frame shift and is not the result of a sequencing artifact; similar to GB:M87049 SP:P25550 GB:M90498 PID:145390 PID:148199 71421002658 Predicted permeases [General function prediction only]; Region: COG0730 71421002659 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: Dxr; TIGR00243 71421002660 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 71421002661 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 71421002662 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 71421002663 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 71421002664 hinge region; other site 71421002665 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 71421002666 active site 71421002667 substrate-binding site [chemical binding]; other site 71421002668 metal-binding site [ion binding] 71421002669 ATP binding site [chemical binding]; other site 71421002670 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 71421002671 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 71421002672 dimerization interface [polypeptide binding]; other site 71421002673 domain crossover interface; other site 71421002674 redox-dependent activation switch; other site 71421002675 argininosuccinate lyase; Provisional; Region: PRK04833 71421002676 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 71421002677 active sites [active] 71421002678 tetramer interface [polypeptide binding]; other site 71421002679 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 71421002680 active site 71421002681 tetramer interface; other site 71421002682 carbon storage regulator; Provisional; Region: PRK01712 71421002683 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 71421002684 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 71421002685 motif 1; other site 71421002686 active site 71421002687 motif 2; other site 71421002688 motif 3; other site 71421002689 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 71421002690 phiKZ-like phage internal head proteins; Region: phiKZ_IP; pfam12699 71421002691 DHHA1 domain; Region: DHHA1; pfam02272 71421002692 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 71421002693 Ligand Binding Site [chemical binding]; other site 71421002694 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 71421002695 proline aminopeptidase P II; Provisional; Region: PRK10879 71421002696 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 71421002697 active site 71421002698 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3079 71421002699 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 71421002700 active site 71421002701 catalytic residues [active] 71421002702 galactokinase; Provisional; Region: PRK05101 71421002703 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 71421002704 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 71421002705 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 71421002706 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 71421002707 dimer interface [polypeptide binding]; other site 71421002708 active site 71421002709 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 71421002710 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 71421002711 DNA binding site [nucleotide binding] 71421002712 domain linker motif; other site 71421002713 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 71421002714 dimerization interface (closed form) [polypeptide binding]; other site 71421002715 ligand binding site [chemical binding]; other site 71421002716 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 71421002717 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 71421002718 ligand binding site [chemical binding]; other site 71421002719 calcium binding site [ion binding]; other site 71421002720 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 71421002721 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 71421002722 Walker A/P-loop; other site 71421002723 ATP binding site [chemical binding]; other site 71421002724 Q-loop/lid; other site 71421002725 ABC transporter signature motif; other site 71421002726 Walker B; other site 71421002727 D-loop; other site 71421002728 H-loop/switch region; other site 71421002729 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 71421002730 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 71421002731 TM-ABC transporter signature motif; other site 71421002732 intracellular septation protein A; Reviewed; Region: PRK00259 71421002733 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 71421002734 YciI-like protein; Reviewed; Region: PRK11370 71421002735 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 71421002736 Soluble lytic murein transglycosylase L domain; Region: SLT_L; pfam14718 71421002737 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 71421002738 N-acetyl-D-glucosamine binding site [chemical binding]; other site 71421002739 catalytic residue [active] 71421002740 Trp operon repressor; Provisional; Region: PRK01381 71421002741 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 71421002742 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 71421002743 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 71421002744 Iron-sulfur protein interface; other site 71421002745 proximal quinone binding site [chemical binding]; other site 71421002746 C-subunit interface; other site 71421002747 distal quinone binding site; other site 71421002748 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 71421002749 D-subunit interface [polypeptide binding]; other site 71421002750 Iron-sulfur protein interface; other site 71421002751 proximal quinone binding site [chemical binding]; other site 71421002752 distal quinone binding site [chemical binding]; other site 71421002753 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 71421002754 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 71421002755 catalytic loop [active] 71421002756 iron binding site [ion binding]; other site 71421002757 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 71421002758 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 71421002759 L-aspartate oxidase; Provisional; Region: PRK06175 71421002760 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 71421002761 poxB regulator PoxA; Provisional; Region: PRK09350 71421002762 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 71421002763 motif 1; other site 71421002764 dimer interface [polypeptide binding]; other site 71421002765 active site 71421002766 motif 2; other site 71421002767 motif 3; other site 71421002768 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 71421002769 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 71421002770 active site 71421002771 phosphorylation site [posttranslational modification] 71421002772 intermolecular recognition site; other site 71421002773 dimerization interface [polypeptide binding]; other site 71421002774 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 71421002775 DNA binding site [nucleotide binding] 71421002776 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 71421002777 Nucleoid-associated protein [General function prediction only]; Region: COG3081 71421002778 hypothetical protein; Provisional; Region: PRK13689 71421002779 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 71421002780 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 71421002781 Sulfatase; Region: Sulfatase; cl19157 71421002782 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 71421002783 GTP binding site; other site 71421002784 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3084 71421002785 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 71421002786 catalytic residues [active] 71421002787 hinge region; other site 71421002788 alpha helical domain; other site 71421002789 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3085 71421002790 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 71421002791 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 71421002792 S-adenosylmethionine binding site [chemical binding]; other site 71421002793 Putative SAM-dependent methyltransferase; Region: SAM_MT; pfam04445 71421002794 Positive regulator of sigma E activity [Signal transduction mechanisms]; Region: RseC; COG3086 71421002795 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 71421002796 Walker A motif; other site 71421002797 putative transporter; Provisional; Region: PRK10504 71421002798 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 71421002799 putative substrate translocation pore; other site 71421002800 antimicrobial peptide ABC transporter periplasmic binding protein SapA; Provisional; Region: PRK15109 71421002801 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 71421002802 peptide binding site [polypeptide binding]; other site 71421002803 heme oxygenase, HugZ family; Region: heme_ox_HugZ; TIGR04109 71421002804 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 71421002805 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 71421002806 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 71421002807 DNA polymerase I; Provisional; Region: PRK05755 71421002808 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 71421002809 active site 71421002810 metal binding site 1 [ion binding]; metal-binding site 71421002811 putative 5' ssDNA interaction site; other site 71421002812 metal binding site 3; metal-binding site 71421002813 metal binding site 2 [ion binding]; metal-binding site 71421002814 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 71421002815 putative DNA binding site [nucleotide binding]; other site 71421002816 putative metal binding site [ion binding]; other site 71421002817 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 71421002818 active site 71421002819 catalytic site [active] 71421002820 substrate binding site [chemical binding]; other site 71421002821 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 71421002822 active site 71421002823 DNA binding site [nucleotide binding] 71421002824 catalytic site [active] 71421002825 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 71421002826 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 71421002827 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 71421002828 Clp amino terminal domain; Region: Clp_N; pfam02861 71421002829 Clp amino terminal domain; Region: Clp_N; pfam02861 71421002830 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 71421002831 Walker A motif; other site 71421002832 ATP binding site [chemical binding]; other site 71421002833 Walker B motif; other site 71421002834 arginine finger; other site 71421002835 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 71421002836 Walker A motif; other site 71421002837 ATP binding site [chemical binding]; other site 71421002838 Walker B motif; other site 71421002839 arginine finger; other site 71421002840 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 71421002841 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 71421002842 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 71421002843 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 71421002844 exoribonuclease R; Provisional; Region: PRK11642 71421002845 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 71421002846 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 71421002847 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 71421002848 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 71421002849 RNA binding site [nucleotide binding]; other site 71421002850 hypothetical protein; Provisional; Region: PRK11212 71421002851 Pyridoxamine-phosphate oxidase [Coenzyme metabolism]; Region: PdxH; COG0259 71421002852 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 71421002853 Pyridoxine 5'-phosphate oxidase C-terminal dimerization region; Region: PNPOx_C; pfam10590 71421002854 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 71421002855 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 71421002856 G1 box; other site 71421002857 putative GEF interaction site [polypeptide binding]; other site 71421002858 GTP/Mg2+ binding site [chemical binding]; other site 71421002859 Switch I region; other site 71421002860 G2 box; other site 71421002861 G3 box; other site 71421002862 Switch II region; other site 71421002863 G4 box; other site 71421002864 G5 box; other site 71421002865 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 71421002866 Elongation Factor G, domain II; Region: EFG_II; pfam14492 71421002867 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 71421002868 glutamine synthetase; Provisional; Region: glnA; PRK09469 71421002869 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 71421002870 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 71421002871 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 71421002872 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 71421002873 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 71421002874 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 71421002875 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 71421002876 active site 71421002877 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 71421002878 undecaprenyl-phosphate galactose phosphotransferase; Provisional; Region: PRK15204 71421002879 CoA binding domain; Region: CoA_binding; cl17356 71421002880 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 71421002881 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 71421002882 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 71421002883 NAD binding site [chemical binding]; other site 71421002884 substrate binding site [chemical binding]; other site 71421002885 homodimer interface [polypeptide binding]; other site 71421002886 active site 71421002887 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 71421002888 O-Antigen ligase; Region: Wzy_C; pfam04932 71421002889 similar to leucyl aminopeptidase; contains frameshifts 71421002890 Nucleoside diphosphate kinase; Region: NDK; pfam00334 71421002891 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 71421002892 active site 71421002893 multimer interface [polypeptide binding]; other site 71421002894 GTPase CgtA; Reviewed; Region: obgE; PRK12298 71421002895 GTP1/OBG; Region: GTP1_OBG; pfam01018 71421002896 Obg GTPase; Region: Obg; cd01898 71421002897 G1 box; other site 71421002898 GTP/Mg2+ binding site [chemical binding]; other site 71421002899 Switch I region; other site 71421002900 G2 box; other site 71421002901 G3 box; other site 71421002902 Switch II region; other site 71421002903 G4 box; other site 71421002904 G5 box; other site 71421002905 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 71421002906 EamA-like transporter family; Region: EamA; pfam00892 71421002907 EamA-like transporter family; Region: EamA; pfam00892 71421002908 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 71421002909 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 71421002910 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 71421002911 substrate binding pocket [chemical binding]; other site 71421002912 chain length determination region; other site 71421002913 substrate-Mg2+ binding site; other site 71421002914 catalytic residues [active] 71421002915 aspartate-rich region 1; other site 71421002916 active site lid residues [active] 71421002917 aspartate-rich region 2; other site 71421002918 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 71421002919 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 71421002920 two-component response regulator; Provisional; Region: PRK11173 71421002921 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 71421002922 active site 71421002923 phosphorylation site [posttranslational modification] 71421002924 intermolecular recognition site; other site 71421002925 dimerization interface [polypeptide binding]; other site 71421002926 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 71421002927 DNA binding site [nucleotide binding] 71421002928 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 71421002929 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 71421002930 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 71421002931 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 71421002932 DsbD alpha interface [polypeptide binding]; other site 71421002933 catalytic residues [active] 71421002934 Predicted membrane protein [Function unknown]; Region: COG2259 71421002935 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 71421002936 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 71421002937 purine monophosphate binding site [chemical binding]; other site 71421002938 dimer interface [polypeptide binding]; other site 71421002939 putative catalytic residues [active] 71421002940 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 71421002941 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 71421002942 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 71421002943 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 71421002944 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 71421002945 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 71421002946 dimer interface [polypeptide binding]; other site 71421002947 active site 71421002948 glycine-pyridoxal phosphate binding site [chemical binding]; other site 71421002949 folate binding site [chemical binding]; other site 71421002950 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 71421002951 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 71421002952 CoA-binding site [chemical binding]; other site 71421002953 ATP-binding [chemical binding]; other site 71421002954 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3024 71421002955 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 71421002956 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 71421002957 ATP binding site [chemical binding]; other site 71421002958 Mg++ binding site [ion binding]; other site 71421002959 motif III; other site 71421002960 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 71421002961 nucleotide binding region [chemical binding]; other site 71421002962 ATP-binding site [chemical binding]; other site 71421002963 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 71421002964 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 71421002965 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 71421002966 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 71421002967 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 71421002968 HlyD family secretion protein; Region: HlyD_3; pfam13437 71421002969 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 71421002970 MMPL family; Region: MMPL; cl14618 71421002971 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 71421002972 Sporulation related domain; Region: SPOR; pfam05036 71421002973 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 71421002974 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 71421002975 putative substrate translocation pore; other site 71421002976 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 71421002977 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 71421002978 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 71421002979 HlyD family secretion protein; Region: HlyD_3; pfam13437 71421002980 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 71421002981 folate binding site [chemical binding]; other site 71421002982 NADP+ binding site [chemical binding]; other site 71421002983 gamma-glutamyl kinase; Provisional; Region: PRK05429 71421002984 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 71421002985 nucleotide binding site [chemical binding]; other site 71421002986 homotetrameric interface [polypeptide binding]; other site 71421002987 putative phosphate binding site [ion binding]; other site 71421002988 putative allosteric binding site; other site 71421002989 PUA domain; Region: PUA; pfam01472 71421002990 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 71421002991 putative active site [active] 71421002992 Ap4A binding site [chemical binding]; other site 71421002993 nudix motif; other site 71421002994 putative metal binding site [ion binding]; other site 71421002995 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 71421002996 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 71421002997 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 71421002998 dimerization interface [polypeptide binding]; other site 71421002999 active site 71421003000 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 71421003001 nucleoside/Zn binding site; other site 71421003002 dimer interface [polypeptide binding]; other site 71421003003 catalytic motif [active] 71421003004 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4701 71421003005 Protein of unknown function (DUF2547); Region: DUF2547; pfam10818 71421003006 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 71421003007 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 71421003008 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 71421003009 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 71421003010 nucleotide binding region [chemical binding]; other site 71421003011 ATP-binding site [chemical binding]; other site 71421003012 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 71421003013 SEC-C motif; Region: SEC-C; pfam02810 71421003014 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 71421003015 active site 71421003016 8-oxo-dGMP binding site [chemical binding]; other site 71421003017 nudix motif; other site 71421003018 metal binding site [ion binding]; metal-binding site 71421003019 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 71421003020 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 71421003021 UbiA family of prenyltransferases (PTases); Region: PT_UbiA; cl00337 71421003022 TrkA-N domain; Region: TrkA_N; pfam02254 71421003023 Methyltransferase domain; Region: Methyltransf_31; pfam13847 71421003024 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 71421003025 S-adenosylmethionine binding site [chemical binding]; other site 71421003026 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 71421003027 rRNA interaction site [nucleotide binding]; other site 71421003028 S8 interaction site; other site 71421003029 putative laminin-1 binding site; other site 71421003030 elongation factor Ts; Provisional; Region: tsf; PRK09377 71421003031 UBA/TS-N domain; Region: UBA; pfam00627 71421003032 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 71421003033 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 71421003034 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 71421003035 trimer interface [polypeptide binding]; other site 71421003036 active site 71421003037 UDP-GlcNAc binding site [chemical binding]; other site 71421003038 lipid binding site [chemical binding]; lipid-binding site 71421003039 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 71421003040 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 71421003041 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 71421003042 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 71421003043 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 71421003044 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 71421003045 Surface antigen; Region: Bac_surface_Ag; pfam01103 71421003046 zinc metallopeptidase RseP; Provisional; Region: PRK10779 71421003047 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 71421003048 active site 71421003049 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 71421003050 protein binding site [polypeptide binding]; other site 71421003051 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 71421003052 protein binding site [polypeptide binding]; other site 71421003053 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 71421003054 putative substrate binding region [chemical binding]; other site 71421003055 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 71421003056 Cis (Z)-Isoprenyl Diphosphate Synthases; Region: Cis_IPPS; cd00475 71421003057 active site 71421003058 dimer interface [polypeptide binding]; other site 71421003059 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 71421003060 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 71421003061 active site 71421003062 HIGH motif; other site 71421003063 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 71421003064 KMSKS motif; other site 71421003065 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 71421003066 tRNA binding surface [nucleotide binding]; other site 71421003067 Rare lipoprotein B [Cell envelope biogenesis, outer membrane]; Region: RlpB; COG2980 71421003068 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 71421003069 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 71421003070 Processivity clamp loader gamma complex DNA pol III C-term; Region: DNA_pol3_delt_C; pfam14840 71421003071 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 71421003072 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 71421003073 tRNA binding surface [nucleotide binding]; other site 71421003074 anticodon binding site; other site 71421003075 DALR anticodon binding domain; Region: DALR_1; pfam05746 71421003076 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 71421003077 putative active site [active] 71421003078 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 71421003079 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 71421003080 dimer interface [polypeptide binding]; other site 71421003081 motif 1; other site 71421003082 active site 71421003083 motif 2; other site 71421003084 motif 3; other site 71421003085 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 71421003086 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 71421003087 tetramer interface [polypeptide binding]; other site 71421003088 heme binding pocket [chemical binding]; other site 71421003089 NADPH binding site [chemical binding]; other site 71421003090 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 71421003091 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4316 71421003092 enolase; Provisional; Region: eno; PRK00077 71421003093 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 71421003094 dimer interface [polypeptide binding]; other site 71421003095 metal binding site [ion binding]; metal-binding site 71421003096 substrate binding pocket [chemical binding]; other site 71421003097 Predicted flavoproteins [General function prediction only]; Region: COG2081 71421003098 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 71421003099 cytochrome c nitrite reductase, accessory protein NrfF; Region: cyt_nit_nrfF; TIGR03147 71421003100 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 71421003101 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 71421003102 binding surface 71421003103 TPR motif; other site 71421003104 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 71421003105 catalytic residues [active] 71421003106 central insert; other site 71421003107 cytochrome c nitrate reductase biogenesis protein NrfE; Region: cyt_nit_nrfE; TIGR03145 71421003108 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 71421003109 active site 71421003110 dimerization interface [polypeptide binding]; other site 71421003111 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 71421003112 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 71421003113 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 71421003114 Protein of unknown function (DUF2572); Region: DUF2572; pfam10833 71421003115 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 71421003116 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; cl19914 71421003117 transcriptional regulator NrdR; Region: TIGR00244 71421003118 ATP cone domain; Region: ATP-cone; pfam03477 71421003119 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 71421003120 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 71421003121 catalytic motif [active] 71421003122 Zn binding site [ion binding]; other site 71421003123 riboflavin-specific deaminase C-terminal domain; Region: ribD_Cterm; TIGR00227 71421003124 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 71421003125 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 71421003126 PDZ domain of trypsin-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 71421003127 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 71421003128 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 71421003129 DNA binding site [nucleotide binding] 71421003130 catalytic residue [active] 71421003131 H2TH interface [polypeptide binding]; other site 71421003132 putative catalytic residues [active] 71421003133 turnover-facilitating residue; other site 71421003134 intercalation triad [nucleotide binding]; other site 71421003135 8OG recognition residue [nucleotide binding]; other site 71421003136 putative reading head residues; other site 71421003137 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 71421003138 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 71421003139 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 71421003140 pyridoxal 5'-phosphate binding site [chemical binding]; other site 71421003141 catalytic residue [active] 71421003142 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 71421003143 oligomeric interface; other site 71421003144 putative active site [active] 71421003145 homodimer interface [polypeptide binding]; other site 71421003146 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 71421003147 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 71421003148 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 71421003149 inhibitor-cofactor binding pocket; inhibition site 71421003150 pyridoxal 5'-phosphate binding site [chemical binding]; other site 71421003151 catalytic residue [active] 71421003152 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 71421003153 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 71421003154 DNA repair protein radc; Region: radc; TIGR00608 71421003155 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 71421003156 MPN+ (JAMM) motif; other site 71421003157 Zinc-binding site [ion binding]; other site 71421003158 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 71421003159 Flavoprotein; Region: Flavoprotein; cl19190 71421003160 DNA / pantothenate metabolizm flavoprotein; Region: DFP; pfam04127 71421003161 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 71421003162 trimer interface [polypeptide binding]; other site 71421003163 active site 71421003164 division inhibitor protein; Provisional; Region: slmA; PRK09480 71421003165 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 71421003166 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 71421003167 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 71421003168 ligand binding site [chemical binding]; other site 71421003169 flexible hinge region; other site 71421003170 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 71421003171 putative switch regulator; other site 71421003172 non-specific DNA interactions [nucleotide binding]; other site 71421003173 DNA binding site [nucleotide binding] 71421003174 sequence specific DNA binding site [nucleotide binding]; other site 71421003175 putative cAMP binding site [chemical binding]; other site 71421003176 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 71421003177 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 71421003178 S-adenosylmethionine binding site [chemical binding]; other site 71421003179 beta-hexosaminidase; Provisional; Region: PRK05337 71421003180 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 71421003181 putative dimer interface [polypeptide binding]; other site 71421003182 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 71421003183 nucleotide binding site/active site [active] 71421003184 HIT family signature motif; other site 71421003185 catalytic residue [active] 71421003186 similar to isoleucyl-tRNA synthetase; this region contains an authentic point mutation causing a premature stop and is not the result of a sequencing artifact; similar to SP:P00956 GB:K01990 GB:M10428 GB:X00776 PID:146669 71421003187 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 71421003188 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 71421003189 active site 71421003190 Riboflavin kinase; Region: Flavokinase; smart00904 71421003191 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 71421003192 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 71421003193 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 71421003194 dihydroxynaphthoic acid synthetase; Validated; Region: PRK07396 71421003195 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 71421003196 substrate binding site [chemical binding]; other site 71421003197 oxyanion hole (OAH) forming residues; other site 71421003198 trimer interface [polypeptide binding]; other site 71421003199 O-succinylbenzoate synthase [Coenzyme metabolism]; Region: MenC; COG1441 71421003200 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 71421003201 active site 71421003202 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 71421003203 trimer interface [polypeptide binding]; other site 71421003204 active site 71421003205 dimer interface [polypeptide binding]; other site 71421003206 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 71421003207 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 71421003208 carboxyltransferase (CT) interaction site; other site 71421003209 biotinylation site [posttranslational modification]; other site 71421003210 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 71421003211 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 71421003212 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 71421003213 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 71421003214 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 71421003215 similar to outer membrane protein; contains frameshifts 71421003216 Predicted membrane protein [Function unknown]; Region: COG3924 71421003217 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 71421003218 Na binding site [ion binding]; other site 71421003219 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 71421003220 ribosomal protein L11 methyltransferase; Region: prmA; TIGR00406 71421003221 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 71421003222 S-adenosylmethionine binding site [chemical binding]; other site 71421003223 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 71421003224 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 71421003225 FMN binding site [chemical binding]; other site 71421003226 active site 71421003227 catalytic residues [active] 71421003228 substrate binding site [chemical binding]; other site 71421003229 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 71421003230 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 71421003231 SmpB-tmRNA interface; other site 71421003232 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 71421003233 active site 71421003234 ADP/pyrophosphate binding site [chemical binding]; other site 71421003235 dimerization interface [polypeptide binding]; other site 71421003236 allosteric effector site; other site 71421003237 fructose-1,6-bisphosphate binding site; other site 71421003238 hypothetical protein; Validated; Region: PRK02101 71421003239 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 71421003240 DNA protecting protein DprA; Region: dprA; TIGR00732 71421003241 2-isopropylmalate synthase; Validated; Region: PRK00915 71421003242 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 71421003243 active site 71421003244 catalytic residues [active] 71421003245 metal binding site [ion binding]; metal-binding site 71421003246 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 71421003247 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 71421003248 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 71421003249 substrate binding site [chemical binding]; other site 71421003250 ligand binding site [chemical binding]; other site 71421003251 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 71421003252 substrate binding site [chemical binding]; other site 71421003253 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 71421003254 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 71421003255 Paralemmin; Region: Paralemmin; pfam03285 71421003256 Autotransporter beta-domain; Region: Autotransporter; pfam03797 71421003257 recF protein; Region: recf; TIGR00611 71421003258 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 71421003259 Walker A/P-loop; other site 71421003260 ATP binding site [chemical binding]; other site 71421003261 Q-loop/lid; other site 71421003262 ABC transporter signature motif; other site 71421003263 Walker B; other site 71421003264 D-loop; other site 71421003265 H-loop/switch region; other site 71421003266 DNA polymerase III subunit beta; Validated; Region: PRK05643 71421003267 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 71421003268 putative DNA binding surface [nucleotide binding]; other site 71421003269 dimer interface [polypeptide binding]; other site 71421003270 beta-clamp/clamp loader binding surface; other site 71421003271 beta-clamp/translesion DNA polymerase binding surface; other site 71421003272 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 71421003273 DnaA N-terminal domain; Region: DnaA_N; pfam11638 71421003274 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 71421003275 Walker A motif; other site 71421003276 ATP binding site [chemical binding]; other site 71421003277 Walker B motif; other site 71421003278 arginine finger; other site 71421003279 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 71421003280 DnaA box-binding interface [nucleotide binding]; other site 71421003281 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 71421003282 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 71421003283 N-terminal plug; other site 71421003284 ligand-binding site [chemical binding]; other site 71421003285 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 71421003286 similar to outer membrane protein; contains frameshifts 71421003287 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 71421003288 ribonuclease P; Reviewed; Region: rnpA; PRK01732 71421003289 hypothetical protein; Validated; Region: PRK00041 71421003290 membrane protein insertase; Provisional; Region: PRK01318 71421003291 YidC periplasmic domain; Region: YidC_periplas; pfam14849 71421003292 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 71421003293 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 71421003294 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 71421003295 trmE is a tRNA modification GTPase; Region: trmE; cd04164 71421003296 G1 box; other site 71421003297 GTP/Mg2+ binding site [chemical binding]; other site 71421003298 Switch I region; other site 71421003299 G2 box; other site 71421003300 Switch II region; other site 71421003301 G3 box; other site 71421003302 G4 box; other site 71421003303 G5 box; other site 71421003304 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 71421003305 periplasmic folding chaperone; Provisional; Region: PRK10788 71421003306 SurA N-terminal domain; Region: SurA_N_3; cl07813 71421003307 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 71421003308 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 71421003309 Acyltransferase family; Region: Acyl_transf_3; cl19154 71421003310 Sulfatase; Region: Sulfatase; pfam00884 71421003311 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 71421003312 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Region: lytB_ispH; cd13944 71421003313 Fe-S cluster binding site [ion binding]; other site 71421003314 substrate binding site [chemical binding]; other site 71421003315 catalytic site [active] 71421003316 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 71421003317 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 71421003318 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 71421003319 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 71421003320 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 71421003321 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 71421003322 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 71421003323 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase; Region: NAD_binding_11; pfam14833 71421003324 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 71421003325 putative aldolase; Validated; Region: PRK08130 71421003326 intersubunit interface [polypeptide binding]; other site 71421003327 active site 71421003328 Zn2+ binding site [ion binding]; other site 71421003329 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 71421003330 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 71421003331 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 71421003332 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 71421003333 putative NAD(P) binding site [chemical binding]; other site 71421003334 active site 71421003335 putative substrate binding site [chemical binding]; other site 71421003336 GntP family permease; Region: GntP_permease; pfam02447 71421003337 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 71421003338 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 71421003339 contains frameshifts; similar to glycerol uptake facilitator protein; similar to GB:M99611 SP:P18156 PID:142991 PID:142997 PID:2226136 71421003340 thiamine ABC transporter, periplasmic binding protein; Region: thiB; TIGR01276 71421003341 thiamine ABC transporter, permease protein; Region: thiP; TIGR01253 71421003342 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 71421003343 dimer interface [polypeptide binding]; other site 71421003344 conserved gate region; other site 71421003345 putative PBP binding loops; other site 71421003346 ABC-ATPase subunit interface; other site 71421003347 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 71421003348 dimer interface [polypeptide binding]; other site 71421003349 conserved gate region; other site 71421003350 putative PBP binding loops; other site 71421003351 ABC-ATPase subunit interface; other site 71421003352 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 71421003353 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 71421003354 Walker A/P-loop; other site 71421003355 ATP binding site [chemical binding]; other site 71421003356 Q-loop/lid; other site 71421003357 ABC transporter signature motif; other site 71421003358 Walker B; other site 71421003359 D-loop; other site 71421003360 H-loop/switch region; other site 71421003361 biotin synthase; Region: bioB; TIGR00433 71421003362 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 71421003363 FeS/SAM binding site; other site 71421003364 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 71421003365 transketolase; Reviewed; Region: PRK12753 71421003366 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 71421003367 TPP-binding site [chemical binding]; other site 71421003368 dimer interface [polypeptide binding]; other site 71421003369 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 71421003370 PYR/PP interface [polypeptide binding]; other site 71421003371 dimer interface [polypeptide binding]; other site 71421003372 TPP binding site [chemical binding]; other site 71421003373 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 71421003374 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 71421003375 active site 71421003376 dimer interface [polypeptide binding]; other site 71421003377 magnesium binding site [ion binding]; other site 71421003378 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 71421003379 intersubunit interface [polypeptide binding]; other site 71421003380 active site 71421003381 Zn2+ binding site [ion binding]; other site 71421003382 Putative L-xylulose-5-phosphate 3-epimerase [Carbohydrate transport and metabolism]; Region: SgaU; COG3623 71421003383 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 71421003384 AP (apurinic/apyrimidinic) site pocket; other site 71421003385 DNA interaction; other site 71421003386 Metal-binding active site; metal-binding site 71421003387 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 71421003388 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 71421003389 putative N- and C-terminal domain interface [polypeptide binding]; other site 71421003390 putative active site [active] 71421003391 MgATP binding site [chemical binding]; other site 71421003392 catalytic site [active] 71421003393 metal binding site [ion binding]; metal-binding site 71421003394 putative xylulose binding site [chemical binding]; other site 71421003395 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 71421003396 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 71421003397 DctM-like transporters; Region: DctM; pfam06808 71421003398 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 71421003399 2,3-diketo-L-gulonate reductase; Provisional; Region: PRK13260 71421003400 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 71421003401 Transcriptional regulator [Transcription]; Region: IclR; COG1414 71421003402 Bacterial transcriptional regulator; Region: IclR; pfam01614 71421003403 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 71421003404 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 71421003405 motif II; other site 71421003406 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 71421003407 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 71421003408 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 71421003409 Cl binding site [ion binding]; other site 71421003410 oligomer interface [polypeptide binding]; other site 71421003411 YGGT family; Region: YGGT; pfam02325 71421003412 Predicted integral membrane protein [Function unknown]; Region: COG0762 71421003413 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 71421003414 putative active site [active] 71421003415 Glutamine amidotransferases class-II; Region: GATase_2; pfam00310 71421003416 putative dimer interface [polypeptide binding]; other site 71421003417 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 71421003418 AAA domain; Region: AAA_14; pfam13173 71421003419 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 71421003420 HindVP restriction endonuclease; Region: RE_HindVP; pfam09519 71421003421 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 71421003422 cofactor binding site; other site 71421003423 DNA binding site [nucleotide binding] 71421003424 substrate interaction site [chemical binding]; other site 71421003425 similar to methionine synthase I cobalamin-binding subunit; this region contains an authentic frame shift and is not the result of a sequencing artifact; similar to GP:409794 71421003426 ferredoxin-type protein; Provisional; Region: PRK10194 71421003427 ferredoxin-type protein NapF; Region: napF; TIGR00402 71421003428 twin-argninine leader-binding protein DmsD; Provisional; Region: PRK11621 71421003429 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 71421003430 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 71421003431 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 71421003432 anaerobic dimethyl sulfoxide reductase subunit A; Provisional; Region: PRK14990 71421003433 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 71421003434 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 71421003435 putative [Fe4-S4] binding site [ion binding]; other site 71421003436 putative molybdopterin cofactor binding site [chemical binding]; other site 71421003437 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 71421003438 putative molybdopterin cofactor binding site; other site 71421003439 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 71421003440 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 71421003441 MerT mercuric transport protein; Region: MerT; cl03578 71421003442 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 71421003443 metal-binding site [ion binding] 71421003444 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 71421003445 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 71421003446 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 71421003447 Walker A/P-loop; other site 71421003448 ATP binding site [chemical binding]; other site 71421003449 Q-loop/lid; other site 71421003450 ABC transporter signature motif; other site 71421003451 Walker B; other site 71421003452 D-loop; other site 71421003453 H-loop/switch region; other site 71421003454 Cupin; Region: Cupin_6; pfam12852 71421003455 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 71421003456 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 71421003457 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 71421003458 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 71421003459 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 71421003460 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 71421003461 DNA methylase; Region: N6_N4_Mtase; pfam01555 71421003462 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 71421003463 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 71421003464 Bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 71421003465 RNA/DNA hybrid binding site [nucleotide binding]; other site 71421003466 active site 71421003467 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 71421003468 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 71421003469 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 71421003470 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 71421003471 active site 71421003472 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 71421003473 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 71421003474 putative nucleotide binding site [chemical binding]; other site 71421003475 uridine monophosphate binding site [chemical binding]; other site 71421003476 homohexameric interface [polypeptide binding]; other site 71421003477 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 71421003478 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 71421003479 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 71421003480 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 71421003481 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cl19048 71421003482 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 71421003483 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 71421003484 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 71421003485 ATP binding site [chemical binding]; other site 71421003486 putative Mg++ binding site [ion binding]; other site 71421003487 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 71421003488 nucleotide binding region [chemical binding]; other site 71421003489 ATP-binding site [chemical binding]; other site 71421003490 Helicase associated domain (HA2); Region: HA2; pfam04408 71421003491 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 71421003492 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 71421003493 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 71421003494 Predicted membrane protein [Function unknown]; Region: COG2707 71421003495 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 71421003496 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 71421003497 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 71421003498 CTP synthetase; Validated; Region: pyrG; PRK05380 71421003499 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 71421003500 Catalytic site [active] 71421003501 active site 71421003502 UTP binding site [chemical binding]; other site 71421003503 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 71421003504 active site 71421003505 putative oxyanion hole; other site 71421003506 catalytic triad [active] 71421003507 similar to nicotinamide mononucleotide transporter; contains frameshifts 71421003508 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 71421003509 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 71421003510 Walker A/P-loop; other site 71421003511 ATP binding site [chemical binding]; other site 71421003512 Q-loop/lid; other site 71421003513 ABC transporter signature motif; other site 71421003514 Walker B; other site 71421003515 D-loop; other site 71421003516 H-loop/switch region; other site 71421003517 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 71421003518 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 71421003519 dimer interface [polypeptide binding]; other site 71421003520 conserved gate region; other site 71421003521 putative PBP binding loops; other site 71421003522 ABC-ATPase subunit interface; other site 71421003523 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 71421003524 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 71421003525 substrate binding pocket [chemical binding]; other site 71421003526 membrane-bound complex binding site; other site 71421003527 hinge residues; other site 71421003528 EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase); Region: EPSP_synthase; pfam00275 71421003529 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 71421003530 hinge; other site 71421003531 active site 71421003532 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 71421003533 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 71421003534 anti sigma factor interaction site; other site 71421003535 regulatory phosphorylation site [posttranslational modification]; other site 71421003536 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 71421003537 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 71421003538 mce related protein; Region: MCE; pfam02470 71421003539 conserved hypothetical integral membrane protein; Region: TIGR00056 71421003540 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 71421003541 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 71421003542 Walker A/P-loop; other site 71421003543 ATP binding site [chemical binding]; other site 71421003544 Q-loop/lid; other site 71421003545 ABC transporter signature motif; other site 71421003546 Walker B; other site 71421003547 D-loop; other site 71421003548 H-loop/switch region; other site 71421003549 superoxide dismutase; Provisional; Region: PRK10925 71421003550 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 71421003551 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 71421003552 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 71421003553 heme ABC exporter, ATP-binding protein CcmA; Region: ccmA; TIGR01189 71421003554 Walker A/P-loop; other site 71421003555 ATP binding site [chemical binding]; other site 71421003556 Q-loop/lid; other site 71421003557 ABC transporter signature motif; other site 71421003558 Walker B; other site 71421003559 D-loop; other site 71421003560 H-loop/switch region; other site 71421003561 heme exporter protein CcmB; Region: ccmB; TIGR01190 71421003562 heme exporter protein CcmC; Region: ccmC; TIGR01191 71421003563 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 71421003564 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 71421003565 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 71421003566 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 71421003567 catalytic residues [active] 71421003568 central insert; other site 71421003569 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 71421003570 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 71421003571 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 71421003572 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 71421003573 TPR motif; other site 71421003574 binding surface 71421003575 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 71421003576 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 71421003577 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 71421003578 nucleotide binding pocket [chemical binding]; other site 71421003579 K-X-D-G motif; other site 71421003580 catalytic site [active] 71421003581 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 71421003582 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 71421003583 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 71421003584 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 71421003585 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 71421003586 Dimer interface [polypeptide binding]; other site 71421003587 BRCT sequence motif; other site 71421003588 cell division protein ZipA; Provisional; Region: PRK01741 71421003589 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cd00231 71421003590 FtsZ protein binding site [polypeptide binding]; other site 71421003591 putative sulfate transport protein CysZ; Validated; Region: PRK04949 71421003592 cysteine synthase; Region: PLN02565 71421003593 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 71421003594 dimer interface [polypeptide binding]; other site 71421003595 pyridoxal 5'-phosphate binding site [chemical binding]; other site 71421003596 catalytic residue [active] 71421003597 benzoate transport; Region: 2A0115; TIGR00895 71421003598 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 71421003599 putative substrate translocation pore; other site 71421003600 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 71421003601 putative active site [active] 71421003602 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 71421003603 putative dimerization interface [polypeptide binding]; other site 71421003604 Transcriptional regulators [Transcription]; Region: PurR; COG1609 71421003605 putative ligand binding site [chemical binding]; other site 71421003606 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 71421003607 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 71421003608 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 71421003609 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 71421003610 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 71421003611 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 71421003612 similar to aminotransferase; this region contains an authentic point mutation causing a premature stop and is not the result of a sequencing artifact; similar to SP:Q08432 GB:S61781 PID:975351 PID:1934779 PID:1934787 71421003613 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 71421003614 TM-ABC transporter signature motif; other site 71421003615 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 71421003616 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 71421003617 Walker A/P-loop; other site 71421003618 ATP binding site [chemical binding]; other site 71421003619 Q-loop/lid; other site 71421003620 ABC transporter signature motif; other site 71421003621 Walker B; other site 71421003622 D-loop; other site 71421003623 H-loop/switch region; other site 71421003624 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 71421003625 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 71421003626 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 71421003627 putative ligand binding site [chemical binding]; other site 71421003628 xylose isomerase; Provisional; Region: PRK05474 71421003629 D-xylulose kinases, subgroup 1; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 71421003630 N- and C-terminal domain interface [polypeptide binding]; other site 71421003631 D-xylulose kinase; Region: XylB; TIGR01312 71421003632 active site 71421003633 MgATP binding site [chemical binding]; other site 71421003634 catalytic site [active] 71421003635 metal binding site [ion binding]; metal-binding site 71421003636 xylulose binding site [chemical binding]; other site 71421003637 putative homodimer interface [polypeptide binding]; other site 71421003638 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 71421003639 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 71421003640 NADP binding site [chemical binding]; other site 71421003641 homopentamer interface [polypeptide binding]; other site 71421003642 substrate binding site [chemical binding]; other site 71421003643 active site 71421003644 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 71421003645 catalytic residues [active] 71421003646 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 71421003647 intersubunit interface [polypeptide binding]; other site 71421003648 active site 71421003649 catalytic residue [active] 71421003650 Mg chelatase-related protein; Region: TIGR00368 71421003651 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 71421003652 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 71421003653 Walker A motif; other site 71421003654 ATP binding site [chemical binding]; other site 71421003655 Walker B motif; other site 71421003656 arginine finger; other site 71421003657 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 71421003658 Predicted GTPase [General function prediction only]; Region: COG0218 71421003659 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 71421003660 G1 box; other site 71421003661 GTP/Mg2+ binding site [chemical binding]; other site 71421003662 Switch I region; other site 71421003663 G2 box; other site 71421003664 G3 box; other site 71421003665 Switch II region; other site 71421003666 G4 box; other site 71421003667 G5 box; other site 71421003668 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VirK; COG2990 71421003669 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 71421003670 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 71421003671 Walker A/P-loop; other site 71421003672 ATP binding site [chemical binding]; other site 71421003673 Q-loop/lid; other site 71421003674 ABC transporter signature motif; other site 71421003675 Walker B; other site 71421003676 D-loop; other site 71421003677 H-loop/switch region; other site 71421003678 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 71421003679 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 71421003680 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 71421003681 Walker A/P-loop; other site 71421003682 ATP binding site [chemical binding]; other site 71421003683 Q-loop/lid; other site 71421003684 ABC transporter signature motif; other site 71421003685 Walker B; other site 71421003686 D-loop; other site 71421003687 H-loop/switch region; other site 71421003688 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 71421003689 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 71421003690 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 71421003691 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 71421003692 dimer interface [polypeptide binding]; other site 71421003693 conserved gate region; other site 71421003694 putative PBP binding loops; other site 71421003695 ABC-ATPase subunit interface; other site 71421003696 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 71421003697 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 71421003698 dimer interface [polypeptide binding]; other site 71421003699 conserved gate region; other site 71421003700 putative PBP binding loops; other site 71421003701 ABC-ATPase subunit interface; other site 71421003702 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 71421003703 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 71421003704 peptide binding site [polypeptide binding]; other site 71421003705 transaldolase-like protein; Provisional; Region: PTZ00411 71421003706 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 71421003707 active site 71421003708 dimer interface [polypeptide binding]; other site 71421003709 catalytic residue [active] 71421003710 similar to carbon starvation protein; contains frameshifts 71421003711 mraZ protein; Region: TIGR00242 71421003712 MraZ protein; Region: MraZ; pfam02381 71421003713 MraZ protein; Region: MraZ; pfam02381 71421003714 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 71421003715 Cell division protein [Cell division and chromosome partitioning]; Region: FtsL; COG3116 71421003716 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 71421003717 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 71421003718 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 71421003719 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 71421003720 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 71421003721 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 71421003722 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 71421003723 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 71421003724 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 71421003725 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 71421003726 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 71421003727 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 71421003728 Mg++ binding site [ion binding]; other site 71421003729 putative catalytic motif [active] 71421003730 putative substrate binding site [chemical binding]; other site 71421003731 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 71421003732 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 71421003733 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 71421003734 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 71421003735 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 71421003736 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 71421003737 active site 71421003738 homodimer interface [polypeptide binding]; other site 71421003739 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 71421003740 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 71421003741 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 71421003742 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 71421003743 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 71421003744 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 71421003745 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 71421003746 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 71421003747 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 71421003748 Cell division protein FtsQ; Region: FtsQ; pfam03799 71421003749 cell division protein FtsA; Region: ftsA; TIGR01174 71421003750 Cell division protein FtsA; Region: FtsA; smart00842 71421003751 Cell division protein FtsA; Region: FtsA; pfam14450 71421003752 cell division protein FtsZ; Validated; Region: PRK09330 71421003753 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 71421003754 nucleotide binding site [chemical binding]; other site 71421003755 SulA interaction site; other site 71421003756 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 71421003757 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 71421003758 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 71421003759 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 71421003760 Prephenate dehydratase; Region: PDT; pfam00800 71421003761 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 71421003762 putative L-Phe binding site [chemical binding]; other site 71421003763 P-loop ATPase protein family; Region: ATP_bind_2; pfam03668 71421003764 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 71421003765 active site 71421003766 phosphorylation site [posttranslational modification] 71421003767 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 71421003768 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 71421003769 Walker A/P-loop; other site 71421003770 ATP binding site [chemical binding]; other site 71421003771 Q-loop/lid; other site 71421003772 ABC transporter signature motif; other site 71421003773 Walker B; other site 71421003774 D-loop; other site 71421003775 H-loop/switch region; other site 71421003776 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 71421003777 OstA-like protein; Region: OstA; cl00844 71421003778 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 71421003779 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3028 71421003780 Putative modulator of DNA gyrase; Region: PmbA_TldD; cl19356 71421003781 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 71421003782 active site 71421003783 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 71421003784 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 71421003785 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 71421003786 FeS/SAM binding site; other site 71421003787 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 71421003788 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 71421003789 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 71421003790 Walker A/P-loop; other site 71421003791 ATP binding site [chemical binding]; other site 71421003792 Q-loop/lid; other site 71421003793 ABC transporter signature motif; other site 71421003794 Walker B; other site 71421003795 D-loop; other site 71421003796 H-loop/switch region; other site 71421003797 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 71421003798 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 71421003799 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 71421003800 Walker A/P-loop; other site 71421003801 ATP binding site [chemical binding]; other site 71421003802 Q-loop/lid; other site 71421003803 ABC transporter signature motif; other site 71421003804 Walker B; other site 71421003805 D-loop; other site 71421003806 H-loop/switch region; other site 71421003807 thioredoxin reductase; Provisional; Region: PRK10262 71421003808 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 71421003809 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 71421003810 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 71421003811 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 71421003812 Tetratricopeptide repeat; Region: TPR_20; pfam14561 71421003813 ferrochelatase; Region: hemH; TIGR00109 71421003814 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 71421003815 C-terminal domain interface [polypeptide binding]; other site 71421003816 active site 71421003817 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 71421003818 active site 71421003819 N-terminal domain interface [polypeptide binding]; other site 71421003820 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 71421003821 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 71421003822 CoenzymeA binding site [chemical binding]; other site 71421003823 subunit interaction site [polypeptide binding]; other site 71421003824 PHB binding site; other site 71421003825 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 71421003826 putative active site [active] 71421003827 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 71421003828 FAD binding domain; Region: FAD_binding_4; pfam01565 71421003829 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 71421003830 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 71421003831 outer membrane protein A; Reviewed; Region: PRK10808 71421003832 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 71421003833 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 71421003834 ligand binding site [chemical binding]; other site 71421003835 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 71421003836 putative GSH binding site [chemical binding]; other site 71421003837 catalytic residues [active] 71421003838 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 71421003839 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 71421003840 pyridoxal 5'-phosphate binding site [chemical binding]; other site 71421003841 homodimer interface [polypeptide binding]; other site 71421003842 catalytic residue [active] 71421003843 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 71421003844 homodimer interface [polypeptide binding]; other site 71421003845 substrate-cofactor binding pocket; other site 71421003846 pyridoxal 5'-phosphate binding site [chemical binding]; other site 71421003847 catalytic residue [active] 71421003848 hypothetical protein; Provisional; Region: PRK05423 71421003849 hypothetical protein; Provisional; Region: PRK07101 71421003850 substrate-cofactor binding pocket; other site 71421003851 para-aminobenzoate synthase component I; Validated; Region: PRK07093 71421003852 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 71421003853 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 71421003854 Glutamine amidotransferase class-I; Region: GATase; pfam00117 71421003855 glutamine binding [chemical binding]; other site 71421003856 catalytic triad [active] 71421003857 S-adenosylmethionine synthetase; Validated; Region: PRK05250 71421003858 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 71421003859 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 71421003860 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 71421003861 hypothetical protein; Provisional; Region: PRK04860 71421003862 Opacity family porin protein; Region: Opacity; pfam02462 71421003863 arginine transporter permease subunit ArtM; Provisional; Region: artM; PRK11122 71421003864 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 71421003865 dimer interface [polypeptide binding]; other site 71421003866 conserved gate region; other site 71421003867 putative PBP binding loops; other site 71421003868 ABC-ATPase subunit interface; other site 71421003869 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 71421003870 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 71421003871 dimer interface [polypeptide binding]; other site 71421003872 conserved gate region; other site 71421003873 putative PBP binding loops; other site 71421003874 ABC-ATPase subunit interface; other site 71421003875 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 71421003876 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 71421003877 substrate binding pocket [chemical binding]; other site 71421003878 membrane-bound complex binding site; other site 71421003879 hinge residues; other site 71421003880 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 71421003881 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 71421003882 Walker A/P-loop; other site 71421003883 ATP binding site [chemical binding]; other site 71421003884 Q-loop/lid; other site 71421003885 ABC transporter signature motif; other site 71421003886 Walker B; other site 71421003887 D-loop; other site 71421003888 H-loop/switch region; other site 71421003889 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 71421003890 dimer interface [polypeptide binding]; other site 71421003891 active site 71421003892 similar to DNA ligase; contains frameshifts 71421003893 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 71421003894 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 71421003895 Walker A/P-loop; other site 71421003896 ATP binding site [chemical binding]; other site 71421003897 Q-loop/lid; other site 71421003898 ABC transporter signature motif; other site 71421003899 Walker B; other site 71421003900 D-loop; other site 71421003901 H-loop/switch region; other site 71421003902 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 71421003903 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 71421003904 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 71421003905 Walker A/P-loop; other site 71421003906 ATP binding site [chemical binding]; other site 71421003907 Q-loop/lid; other site 71421003908 ABC transporter signature motif; other site 71421003909 Walker B; other site 71421003910 D-loop; other site 71421003911 H-loop/switch region; other site 71421003912 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 71421003913 dipeptide transporter; Provisional; Region: PRK10913 71421003914 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 71421003915 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 71421003916 dimer interface [polypeptide binding]; other site 71421003917 conserved gate region; other site 71421003918 putative PBP binding loops; other site 71421003919 ABC-ATPase subunit interface; other site 71421003920 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 71421003921 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 71421003922 dimer interface [polypeptide binding]; other site 71421003923 conserved gate region; other site 71421003924 putative PBP binding loops; other site 71421003925 ABC-ATPase subunit interface; other site 71421003926 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 71421003927 Part of AAA domain; Region: AAA_19; pfam13245 71421003928 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 71421003929 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 71421003930 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 71421003931 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 71421003932 FeS/SAM binding site; other site 71421003933 6-pyruvoyl tetrahydropterin synthase/QueD family protein; Region: 6PTHBS; TIGR00039 71421003934 active site 71421003935 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 71421003936 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 71421003937 homodimer interface [polypeptide binding]; other site 71421003938 substrate-cofactor binding pocket; other site 71421003939 catalytic residue [active] 71421003940 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 71421003941 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 71421003942 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 71421003943 dimerization interface [polypeptide binding]; other site 71421003944 substrate binding pocket [chemical binding]; other site 71421003945 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 71421003946 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 71421003947 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 71421003948 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 71421003949 CoA-ligase; Region: Ligase_CoA; pfam00549 71421003950 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 71421003951 CoA binding domain; Region: CoA_binding; pfam02629 71421003952 CoA-ligase; Region: Ligase_CoA; pfam00549 71421003953 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 71421003954 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 71421003955 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 71421003956 RNA binding surface [nucleotide binding]; other site 71421003957 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 71421003958 probable active site [active] 71421003959 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 71421003960 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 71421003961 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 71421003962 substrate binding site [chemical binding]; other site 71421003963 dimerization interface [polypeptide binding]; other site 71421003964 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK11805 71421003965 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 71421003966 S-adenosylmethionine binding site [chemical binding]; other site 71421003967 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 71421003968 hypothetical protein; Provisional; Region: PRK04946 71421003969 phosphate acetyltransferase; Reviewed; Region: PRK05632 71421003970 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 71421003971 DRTGG domain; Region: DRTGG; pfam07085 71421003972 phosphate acetyltransferase; Region: pta; TIGR00651 71421003973 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 71421003974 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3092 71421003975 Colicin V production protein; Region: Colicin_V; cl00567 71421003976 amidophosphoribosyltransferase; Provisional; Region: PRK09246 71421003977 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 71421003978 active site 71421003979 tetramer interface [polypeptide binding]; other site 71421003980 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 71421003981 active site 71421003982 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 71421003983 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 71421003984 NAD(P) binding site [chemical binding]; other site 71421003985 active site 71421003986 arginine repressor; Provisional; Region: PRK05066 71421003987 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 71421003988 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 71421003989 malate dehydrogenase; Provisional; Region: PRK05086 71421003990 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 71421003991 NAD binding site [chemical binding]; other site 71421003992 dimerization interface [polypeptide binding]; other site 71421003993 Substrate binding site [chemical binding]; other site 71421003994 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 71421003995 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 71421003996 dimer interface [polypeptide binding]; other site 71421003997 putative anticodon binding site; other site 71421003998 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 71421003999 motif 1; other site 71421004000 active site 71421004001 motif 2; other site 71421004002 motif 3; other site 71421004003 This domain is found in peptide chain release factors; Region: PCRF; smart00937 71421004004 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 71421004005 RF-1 domain; Region: RF-1; pfam00472 71421004006 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 71421004007 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 71421004008 dimerization domain [polypeptide binding]; other site 71421004009 dimer interface [polypeptide binding]; other site 71421004010 catalytic residues [active] 71421004011 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 71421004012 DHH family; Region: DHH; pfam01368 71421004013 DHHA1 domain; Region: DHHA1; pfam02272 71421004014 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 71421004015 catalytic residues [active] 71421004016 hinge region; other site 71421004017 alpha helical domain; other site 71421004018 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 71421004019 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 71421004020 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 71421004021 L-lactate transport; Region: lctP; TIGR00795 71421004022 cytidylate kinase; Provisional; Region: cmk; PRK00023 71421004023 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 71421004024 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 71421004025 Walker A/P-loop; other site 71421004026 ATP binding site [chemical binding]; other site 71421004027 Q-loop/lid; other site 71421004028 CMP-binding site; other site 71421004029 The sites determining sugar specificity; other site 71421004030 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 71421004031 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 71421004032 RNA binding site [nucleotide binding]; other site 71421004033 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 71421004034 RNA binding site [nucleotide binding]; other site 71421004035 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 71421004036 RNA binding site [nucleotide binding]; other site 71421004037 S1_RPS1_repeat_ec4: 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_ec4; cd05689 71421004038 RNA binding site [nucleotide binding]; other site 71421004039 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 71421004040 RNA binding site [nucleotide binding]; other site 71421004041 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 71421004042 RNA binding site [nucleotide binding]; other site 71421004043 Beta subunit of integration host factor (IHFB); Region: IHF_B; cd13836 71421004044 dimer interface [polypeptide binding]; other site 71421004045 DNA binding site [nucleotide binding] 71421004046 Predicted membrane protein [Function unknown]; Region: COG3771 71421004047 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 71421004048 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 71421004049 binding surface 71421004050 TPR motif; other site 71421004051 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 71421004052 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 71421004053 active site 71421004054 dimer interface [polypeptide binding]; other site 71421004055 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 71421004056 putative rRNA binding site [nucleotide binding]; other site 71421004057 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 71421004058 DNA replication initiation factor; Validated; Region: PRK06893 71421004059 uracil-xanthine permease; Region: ncs2; TIGR00801 71421004060 Sulfate transporter family; Region: Sulfate_transp; cl19250 71421004061 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 71421004062 active site 71421004063 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 71421004064 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 71421004065 Walker A motif; other site 71421004066 ATP binding site [chemical binding]; other site 71421004067 Walker B motif; other site 71421004068 arginine finger; other site 71421004069 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 71421004070 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 71421004071 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 71421004072 active site 71421004073 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 71421004074 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 71421004075 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 71421004076 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 71421004077 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 71421004078 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 71421004079 E3 interaction surface; other site 71421004080 lipoyl attachment site [posttranslational modification]; other site 71421004081 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 71421004082 E3 interaction surface; other site 71421004083 lipoyl attachment site [posttranslational modification]; other site 71421004084 e3 binding domain; Region: E3_binding; pfam02817 71421004085 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 71421004086 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 71421004087 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 71421004088 dimer interface [polypeptide binding]; other site 71421004089 TPP-binding site [chemical binding]; other site 71421004090 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 71421004091 active site 71421004092 dimer interfaces [polypeptide binding]; other site 71421004093 catalytic residues [active] 71421004094 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 71421004095 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 71421004096 nucleotide binding site [chemical binding]; other site 71421004097 chaperone protein DnaJ; Provisional; Region: PRK10767 71421004098 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 71421004099 HSP70 interaction site [polypeptide binding]; other site 71421004100 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 71421004101 substrate binding site [polypeptide binding]; other site 71421004102 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 71421004103 Zn binding sites [ion binding]; other site 71421004104 dimer interface [polypeptide binding]; other site 71421004105 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 71421004106 putative catalytic cysteine [active] 71421004107 Predicted membrane protein [Function unknown]; Region: COG2860 71421004108 UPF0126 domain; Region: UPF0126; pfam03458 71421004109 UPF0126 domain; Region: UPF0126; pfam03458 71421004110 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 71421004111 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 71421004112 putative substrate translocation pore; other site 71421004113 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 71421004114 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 71421004115 RNA binding surface [nucleotide binding]; other site 71421004116 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 71421004117 active site 71421004118 uracil binding [chemical binding]; other site 71421004119 Exopolysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3955 71421004120 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 71421004121 Malic enzyme, N-terminal domain; Region: malic; pfam00390 71421004122 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 71421004123 putative NAD(P) binding site [chemical binding]; other site 71421004124 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 71421004125 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 71421004126 Sulfatase; Region: Sulfatase; pfam00884 71421004127 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 71421004128 excinuclease ABC subunit B; Provisional; Region: PRK05298 71421004129 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 71421004130 ATP-binding site [chemical binding]; other site 71421004131 ATP binding site [chemical binding]; other site 71421004132 Bifunctional transglycosylase second domain; Region: UB2H; pfam14814 71421004133 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 71421004134 nucleotide binding region [chemical binding]; other site 71421004135 ATP-binding site [chemical binding]; other site 71421004136 Ultra-violet resistance protein B; Region: UvrB; pfam12344 71421004137 UvrB/uvrC motif; Region: UVR; pfam02151 71421004138 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 71421004139 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG3683 71421004140 Plasmid maintenance system killer protein [General function prediction only]; Region: HigB; COG3549 71421004141 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 71421004142 non-specific DNA binding site [nucleotide binding]; other site 71421004143 salt bridge; other site 71421004144 sequence-specific DNA binding site [nucleotide binding]; other site 71421004145 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 71421004146 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 71421004147 ABC transporter; Region: ABC_tran_2; pfam12848 71421004148 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 71421004149 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3094 71421004150 transcription-repair coupling factor; Provisional; Region: PRK10689 71421004151 Bifunctional transglycosylase second domain; Region: UB2H; pfam14814 71421004152 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 71421004153 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 71421004154 ATP binding site [chemical binding]; other site 71421004155 putative Mg++ binding site [ion binding]; other site 71421004156 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 71421004157 nucleotide binding region [chemical binding]; other site 71421004158 ATP-binding site [chemical binding]; other site 71421004159 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 71421004160 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 71421004161 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 71421004162 PDZ domain of trypsin-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 71421004163 protein binding site [polypeptide binding]; other site 71421004164 PDZ domain of trypsin-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 71421004165 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 71421004166 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 71421004167 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 71421004168 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 71421004169 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 71421004170 putative active site [active] 71421004171 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 71421004172 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 71421004173 DNA gyrase subunit A; Validated; Region: PRK05560 71421004174 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 71421004175 CAP-like domain; other site 71421004176 active site 71421004177 primary dimer interface [polypeptide binding]; other site 71421004178 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 71421004179 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 71421004180 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 71421004181 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 71421004182 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 71421004183 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 71421004184 uncharacterized domain; Region: TIGR00702 71421004185 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 71421004186 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 71421004187 Walker A/P-loop; other site 71421004188 ATP binding site [chemical binding]; other site 71421004189 Q-loop/lid; other site 71421004190 ABC transporter signature motif; other site 71421004191 Walker B; other site 71421004192 D-loop; other site 71421004193 H-loop/switch region; other site 71421004194 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 71421004195 S-adenosylmethionine binding site [chemical binding]; other site 71421004196 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 71421004197 tellurite resistance protein TehB; Provisional; Region: PRK12335 71421004198 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 71421004199 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 71421004200 S-adenosylmethionine binding site [chemical binding]; other site 71421004201 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 71421004202 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 71421004203 active site 71421004204 HIGH motif; other site 71421004205 KMSKS motif; other site 71421004206 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 71421004207 tRNA binding surface [nucleotide binding]; other site 71421004208 anticodon binding site; other site 71421004209 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 71421004210 dimer interface [polypeptide binding]; other site 71421004211 putative tRNA-binding site [nucleotide binding]; other site 71421004212 antiporter inner membrane protein; Provisional; Region: PRK11670 71421004213 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 71421004214 Walker A motif; other site 71421004215 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 71421004216 dimer interface [polypeptide binding]; other site 71421004217 FMN binding site [chemical binding]; other site 71421004218 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 71421004219 ligand binding site; other site 71421004220 tetramer interface; other site 71421004221 similar to HI1721 and transposases; this region contains an authentic point mutation causing a premature stop and is not the result of a sequencing artifact; similar to GB:M29945 PID:1197032 SP:P19769 GB:X07037 PID:581111 PID:912474 GB:U00096 71421004222 hypothetical protein; Provisional; Region: PRK14641 71421004223 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 71421004224 putative oligomer interface [polypeptide binding]; other site 71421004225 putative RNA binding site [nucleotide binding]; other site 71421004226 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 71421004227 NusA N-terminal domain; Region: NusA_N; pfam08529 71421004228 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 71421004229 RNA binding site [nucleotide binding]; other site 71421004230 homodimer interface [polypeptide binding]; other site 71421004231 NusA-like KH domain; Region: KH_5; pfam13184 71421004232 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 71421004233 G-X-X-G motif; other site 71421004234 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 71421004235 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 71421004236 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 71421004237 Protein of unknown function (DUF1682); Region: DUF1682; pfam07946 71421004238 translation initiation factor IF-2; Validated; Region: infB; PRK05306 71421004239 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 71421004240 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 71421004241 G1 box; other site 71421004242 putative GEF interaction site [polypeptide binding]; other site 71421004243 GTP/Mg2+ binding site [chemical binding]; other site 71421004244 Switch I region; other site 71421004245 G2 box; other site 71421004246 G3 box; other site 71421004247 Switch II region; other site 71421004248 G4 box; other site 71421004249 G5 box; other site 71421004250 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 71421004251 Translation-initiation factor 2; Region: IF-2; pfam11987 71421004252 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 71421004253 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 71421004254 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 71421004255 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 71421004256 ATP binding site [chemical binding]; other site 71421004257 putative Mg++ binding site [ion binding]; other site 71421004258 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 71421004259 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 71421004260 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 71421004261 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 71421004262 HsdM N-terminal domain; Region: HsdM_N; pfam12161 71421004263 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 71421004264 Methyltransferase domain; Region: Methyltransf_26; pfam13659 71421004265 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 71421004266 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 71421004267 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 71421004268 RNA binding site [nucleotide binding]; other site 71421004269 active site 71421004270 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 71421004271 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 71421004272 chorismate mutase domain of T-protein; Region: CM_T; TIGR01799 71421004273 prephenate dehydrogenase; Validated; Region: PRK08507 71421004274 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 71421004275 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 71421004276 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 71421004277 Zn-ribbon-containing, possibly nucleic-acid-binding protein [General function prediction only]; Region: COG5595 71421004278 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 71421004279 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 71421004280 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 71421004281 catalytic residue [active] 71421004282 Staphylococcal nuclease homologues; Region: SNc; smart00318 71421004283 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 71421004284 Catalytic site; other site 71421004285 hypothetical protein; Provisional; Region: PRK01821 71421004286 TIGR00659 family protein; Region: TIGR00659 71421004287 similar to dGTP triphosphohydrolase; this region contains an authentic frame shift and is not the result of a sequencing artifact; similar to GP:1781251 71421004288 ABC transporter ATPase component; Reviewed; Region: PRK11147 71421004289 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 71421004290 ABC transporter; Region: ABC_tran_2; pfam12848 71421004291 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 71421004292 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 71421004293 active site clefts [active] 71421004294 zinc binding site [ion binding]; other site 71421004295 dimer interface [polypeptide binding]; other site 71421004296 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 71421004297 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 71421004298 putative dimer interface [polypeptide binding]; other site 71421004299 putative anticodon binding site; other site 71421004300 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 71421004301 homodimer interface [polypeptide binding]; other site 71421004302 motif 1; other site 71421004303 motif 2; other site 71421004304 active site 71421004305 motif 3; other site 71421004306 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 71421004307 homopentamer interface [polypeptide binding]; other site 71421004308 active site 71421004309 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 71421004310 putative RNA binding site [nucleotide binding]; other site 71421004311 thiamine-monophosphate kinase; Region: thiL; TIGR01379 71421004312 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 71421004313 ATP binding site [chemical binding]; other site 71421004314 dimerization interface [polypeptide binding]; other site 71421004315 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 71421004316 tetramer interfaces [polypeptide binding]; other site 71421004317 binuclear metal-binding site [ion binding]; other site 71421004318 The Resistance to Homoserine/Threonine (RhtB) Family protein; Region: 2A76; TIGR00949 71421004319 dihydrodipicolinate reductase; Region: dapB; TIGR00036 71421004320 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 71421004321 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 71421004322 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 71421004323 catalytic loop [active] 71421004324 iron binding site [ion binding]; other site 71421004325 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 71421004326 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 71421004327 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 71421004328 dimer interface [polypeptide binding]; other site 71421004329 motif 1; other site 71421004330 active site 71421004331 motif 2; other site 71421004332 motif 3; other site 71421004333 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 71421004334 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 71421004335 putative tRNA-binding site [nucleotide binding]; other site 71421004336 B3/4 domain; Region: B3_4; pfam03483 71421004337 tRNA synthetase B5 domain; Region: B5; smart00874 71421004338 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 71421004339 dimer interface [polypeptide binding]; other site 71421004340 motif 1; other site 71421004341 motif 3; other site 71421004342 motif 2; other site 71421004343 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 71421004344 Alpha subunit of integration host factor (IHFA); Region: IHF_A; cd13835 71421004345 DNA binding site [nucleotide binding] 71421004346 dimer interface [polypeptide binding]; other site 71421004347 NlpC/P60 family; Region: NLPC_P60; pfam00877 71421004348 Predicted symporter [General function prediction only]; Region: COG4146 71421004349 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 71421004350 Sulfatase; Region: Sulfatase; cl19157 71421004351 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 71421004352 active site 71421004353 phosphate binding residues; other site 71421004354 catalytic residues [active] 71421004355 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 71421004356 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 71421004357 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 71421004358 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 71421004359 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 71421004360 23S rRNA binding site [nucleotide binding]; other site 71421004361 L21 binding site [polypeptide binding]; other site 71421004362 L13 binding site [polypeptide binding]; other site 71421004363 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 71421004364 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 71421004365 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 71421004366 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 71421004367 AAA domain; Region: AAA_30; pfam13604 71421004368 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 71421004369 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 71421004370 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 71421004371 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 71421004372 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 71421004373 active site 1 [active] 71421004374 dimer interface [polypeptide binding]; other site 71421004375 active site 2 [active] 71421004376 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 71421004377 ATP binding site [chemical binding]; other site 71421004378 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 71421004379 16S/18S rRNA binding site [nucleotide binding]; other site 71421004380 S13e-L30e interaction site [polypeptide binding]; other site 71421004381 25S rRNA binding site [nucleotide binding]; other site 71421004382 similar to IS1016-V6 protein transposase; contains frameshifts; similar to GB:X59756 71421004383 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 71421004384 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 71421004385 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 71421004386 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 71421004387 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 71421004388 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 71421004389 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 71421004390 S-adenosylmethionine binding site [chemical binding]; other site 71421004391 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 71421004392 FtsH Extracellular; Region: FtsH_ext; pfam06480 71421004393 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 71421004394 Walker A motif; other site 71421004395 ATP binding site [chemical binding]; other site 71421004396 Walker B motif; other site 71421004397 arginine finger; other site 71421004398 Peptidase family M41; Region: Peptidase_M41; pfam01434 71421004399 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 71421004400 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 71421004401 substrate binding pocket [chemical binding]; other site 71421004402 dimer interface [polypeptide binding]; other site 71421004403 inhibitor binding site; inhibition site 71421004404 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 71421004405 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 71421004406 active site 71421004407 substrate binding site [chemical binding]; other site 71421004408 metal binding site [ion binding]; metal-binding site 71421004409 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 71421004410 catalytic core [active] 71421004411 Apolipoprotein A1/A4/E domain; Region: Apolipoprotein; pfam01442 71421004412 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 71421004413 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 71421004414 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 71421004415 Outer membrane efflux protein; Region: OEP; pfam02321 71421004416 Zn-ribbon-containing, possibly nucleic-acid-binding protein [General function prediction only]; Region: COG5595 71421004417 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; cl18945 71421004418 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 71421004419 catalytic residue [active] 71421004420 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 71421004421 H-loop/switch region; other site 71421004422 ABC transporter; Region: ABC_tran_2; pfam12848 71421004423 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 71421004424 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 71421004425 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 71421004426 spermidine/putrescine ABC transporter membrane protein; Reviewed; Region: potC; PRK09500 71421004427 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 71421004428 dimer interface [polypeptide binding]; other site 71421004429 conserved gate region; other site 71421004430 putative PBP binding loops; other site 71421004431 ABC-ATPase subunit interface; other site 71421004432 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 71421004433 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 71421004434 dimer interface [polypeptide binding]; other site 71421004435 conserved gate region; other site 71421004436 putative PBP binding loops; other site 71421004437 ABC-ATPase subunit interface; other site 71421004438 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 71421004439 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 71421004440 Walker A/P-loop; other site 71421004441 ATP binding site [chemical binding]; other site 71421004442 Q-loop/lid; other site 71421004443 ABC transporter signature motif; other site 71421004444 Walker B; other site 71421004445 D-loop; other site 71421004446 H-loop/switch region; other site 71421004447 TOBE domain; Region: TOBE_2; pfam08402 71421004448 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 71421004449 peptidase T-like protein; Region: PepT-like; TIGR01883 71421004450 metal binding site [ion binding]; metal-binding site 71421004451 dimer interface [polypeptide binding]; other site 71421004452 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 71421004453 Ferritin-like domain; Region: Ferritin; pfam00210 71421004454 dimerization interface [polypeptide binding]; other site 71421004455 DPS ferroxidase diiron center [ion binding]; other site 71421004456 ion pore; other site 71421004457 cytidine deaminase; Provisional; Region: PRK09027 71421004458 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 71421004459 active site 71421004460 catalytic motif [active] 71421004461 Zn binding site [ion binding]; other site 71421004462 Cytidine and deoxycytidylate deaminase zinc-binding region; Region: dCMP_cyt_deam_2; pfam08211 71421004463 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 71421004464 active site 71421004465 catalytic motif [active] 71421004466 Zn binding site [ion binding]; other site 71421004467 tRNA (mo5U34)-methyltransferase; Region: TIGR00452 71421004468 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 71421004469 S-adenosylmethionine binding site [chemical binding]; other site 71421004470 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 71421004471 Na binding site [ion binding]; other site 71421004472 ribonuclease G; Provisional; Region: PRK11712 71421004473 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 71421004474 homodimer interface [polypeptide binding]; other site 71421004475 oligonucleotide binding site [chemical binding]; other site 71421004476 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 71421004477 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 71421004478 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 71421004479 active site 71421004480 HIGH motif; other site 71421004481 KMSKS motif; other site 71421004482 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 71421004483 Uncharacterized conserved protein [Function unknown]; Region: COG2983 71421004484 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 71421004485 4-alpha-glucanotransferase; Region: malQ; TIGR00217 71421004486 glycogen branching enzyme; Provisional; Region: PRK05402 71421004487 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 71421004488 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 71421004489 active site 71421004490 catalytic site [active] 71421004491 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 71421004492 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 71421004493 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 71421004494 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 71421004495 active site 71421004496 catalytic site [active] 71421004497 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 71421004498 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 71421004499 ligand binding site; other site 71421004500 oligomer interface; other site 71421004501 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 71421004502 dimer interface [polypeptide binding]; other site 71421004503 N-terminal domain interface [polypeptide binding]; other site 71421004504 sulfate 1 binding site; other site 71421004505 glycogen synthase; Provisional; Region: glgA; PRK00654 71421004506 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 71421004507 ADP-binding pocket [chemical binding]; other site 71421004508 homodimer interface [polypeptide binding]; other site 71421004509 glycogen phosphorylase; Provisional; Region: PRK14986 71421004510 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 71421004511 homodimer interface [polypeptide binding]; other site 71421004512 active site pocket [active] 71421004513 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 71421004514 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 71421004515 ligand binding site [chemical binding]; other site 71421004516 homodimer interface [polypeptide binding]; other site 71421004517 NAD(P) binding site [chemical binding]; other site 71421004518 trimer interface B [polypeptide binding]; other site 71421004519 trimer interface A [polypeptide binding]; other site 71421004520 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 71421004521 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 71421004522 Transcriptional regulator [Transcription]; Region: LysR; COG0583 71421004523 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 71421004524 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 71421004525 putative effector binding pocket; other site 71421004526 dimerization interface [polypeptide binding]; other site 71421004527 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 71421004528 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 71421004529 active site 71421004530 interdomain interaction site; other site 71421004531 putative metal-binding site [ion binding]; other site 71421004532 nucleotide binding site [chemical binding]; other site 71421004533 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 71421004534 domain I; other site 71421004535 DNA binding groove [nucleotide binding] 71421004536 phosphate binding site [ion binding]; other site 71421004537 domain II; other site 71421004538 domain III; other site 71421004539 nucleotide binding site [chemical binding]; other site 71421004540 catalytic site [active] 71421004541 domain IV; other site 71421004542 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 71421004543 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 71421004544 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 71421004545 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 71421004546 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 71421004547 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 71421004548 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 71421004549 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 71421004550 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 71421004551 active site 71421004552 dimer interface [polypeptide binding]; other site 71421004553 motif 1; other site 71421004554 motif 2; other site 71421004555 motif 3; other site 71421004556 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 71421004557 anticodon binding site; other site 71421004558 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 71421004559 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 71421004560 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 71421004561 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 71421004562 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 71421004563 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 71421004564 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 71421004565 molybdenum-pterin binding domain; Region: Mop; TIGR00638 71421004566 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 71421004567 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 71421004568 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 71421004569 Ligand Binding Site [chemical binding]; other site 71421004570 KicB killing factor; Region: KicB; pfam03882 71421004571 condesin subunit E; Provisional; Region: PRK05256 71421004572 Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: MukB; COG3096 71421004573 P-loop containing region of AAA domain; Region: AAA_29; cl17516 71421004574 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 71421004575 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 71421004576 Uncharacterized conserved protein [Function unknown]; Region: COG3586 71421004577 exonuclease I; Provisional; Region: sbcB; PRK11779 71421004578 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 71421004579 active site 71421004580 catalytic site [active] 71421004581 substrate binding site [chemical binding]; other site 71421004582 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 71421004583 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 71421004584 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 71421004585 putative active site [active] 71421004586 heme pocket [chemical binding]; other site 71421004587 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 71421004588 dimer interface [polypeptide binding]; other site 71421004589 phosphorylation site [posttranslational modification] 71421004590 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 71421004591 ATP binding site [chemical binding]; other site 71421004592 Mg2+ binding site [ion binding]; other site 71421004593 G-X-G motif; other site 71421004594 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 71421004595 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 71421004596 active site 71421004597 phosphorylation site [posttranslational modification] 71421004598 intermolecular recognition site; other site 71421004599 dimerization interface [polypeptide binding]; other site 71421004600 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 71421004601 DNA binding site [nucleotide binding] 71421004602 similar to phosphate transport system ATPase component; artificial frameshift 71421004603 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 71421004604 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 71421004605 dimer interface [polypeptide binding]; other site 71421004606 conserved gate region; other site 71421004607 putative PBP binding loops; other site 71421004608 ABC-ATPase subunit interface; other site 71421004609 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 71421004610 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 71421004611 dimer interface [polypeptide binding]; other site 71421004612 conserved gate region; other site 71421004613 putative PBP binding loops; other site 71421004614 ABC-ATPase subunit interface; other site 71421004615 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 71421004616 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 71421004617 Ferritin-like domain; Region: Ferritin; pfam00210 71421004618 ferroxidase diiron center [ion binding]; other site 71421004619 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 71421004620 Ferritin-like domain; Region: Ferritin; pfam00210 71421004621 ferroxidase diiron center [ion binding]; other site 71421004622 anthranilate synthase component I; Provisional; Region: PRK13564 71421004623 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 71421004624 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 71421004625 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 71421004626 Glutamine amidotransferase class-I; Region: GATase; pfam00117 71421004627 glutamine binding [chemical binding]; other site 71421004628 catalytic triad [active] 71421004629 Tautomerase enzyme; Region: Tautomerase_2; pfam14552 71421004630 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 71421004631 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 71421004632 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 71421004633 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 71421004634 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 71421004635 active site 71421004636 ribulose/triose binding site [chemical binding]; other site 71421004637 phosphate binding site [ion binding]; other site 71421004638 substrate (anthranilate) binding pocket [chemical binding]; other site 71421004639 product (indole) binding pocket [chemical binding]; other site 71421004640 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 71421004641 active site 71421004642 HupF/HypC family; Region: HupF_HypC; cl00394 71421004643 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 71421004644 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 71421004645 active site 71421004646 HIGH motif; other site 71421004647 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 71421004648 KMSKS motif; other site 71421004649 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 71421004650 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 71421004651 tRNA binding surface [nucleotide binding]; other site 71421004652 anticodon binding site; other site 71421004653 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 71421004654 DNA methylase; Region: N6_N4_Mtase; pfam01555 71421004655 HindIII restriction endonuclease; Region: RE_HindIII; pfam09518 71421004656 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 71421004657 DNA polymerase III subunit chi; Validated; Region: PRK05728 71421004658 fumarate hydratase; Reviewed; Region: fumC; PRK00485 71421004659 Class II fumarases; Region: Fumarase_classII; cd01362 71421004660 active site 71421004661 tetramer interface [polypeptide binding]; other site 71421004662 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 71421004663 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 71421004664 active site 71421004665 dihydroorotate dehydrogenase, subfamily 2; Region: pyrD_sub2; TIGR01036 71421004666 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 71421004667 quinone interaction residues [chemical binding]; other site 71421004668 active site 71421004669 catalytic residues [active] 71421004670 FMN binding site [chemical binding]; other site 71421004671 substrate binding site [chemical binding]; other site 71421004672 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 71421004673 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3566 71421004674 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 71421004675 Uncharacterized protein, homolog of phage Mu protein gp30 [Function unknown]; Region: COG2369 71421004676 Phage Mu protein F like protein; Region: Phage_Mu_F; pfam04233 71421004677 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3567 71421004678 Phage terminase large subunit [General function prediction only]; Region: XtmB; COG1783 71421004679 Terminase small subunit; Region: Terminase_2; pfam03592 71421004680 Uncharacterized phage-encoded protein [Function unknown]; Region: COG3646 71421004681 phage regulatory protein, rha family; Region: phage_pRha; TIGR02681 71421004682 ORF11CD3 domain; Region: ORF11CD3; pfam10549 71421004683 Protein of unknown function (DUF2570); Region: DUF2570; pfam10828 71421004684 Predicted chitinase [General function prediction only]; Region: COG3179 71421004685 catalytic residue [active] 71421004686 phage holin, lambda family; Region: holin_lambda; TIGR01594 71421004687 Prophage antirepressor [Transcription]; Region: COG3617 71421004688 BRO family, N-terminal domain; Region: Bro-N; pfam02498 71421004689 P22AR C-terminal domain; Region: P22_AR_C; pfam10548 71421004690 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3657 71421004691 Predicted transcriptional regulator [Transcription]; Region: COG3636 71421004692 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 71421004693 non-specific DNA binding site [nucleotide binding]; other site 71421004694 sequence-specific DNA binding site [nucleotide binding]; other site 71421004695 salt bridge; other site 71421004696 Phage anti-repressor protein [Transcription]; Region: COG3561 71421004697 P22AR C-terminal domain; Region: P22_AR_C; pfam10548 71421004698 lac repressor; Reviewed; Region: lacI; PRK09526 71421004699 Rci recombinase, C-terminal catalytic domain. Rci enzymes are found in IncI1 incompatibility group plasmids such as R64. These recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain...; Region: INT_Rci; cd00796 71421004700 catalytic residues [active] 71421004701 Int/Topo IB signature motif; other site 71421004702 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 71421004703 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 71421004704 ligand binding site [chemical binding]; other site 71421004705 flexible hinge region; other site 71421004706 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 71421004707 putative switch regulator; other site 71421004708 non-specific DNA interactions [nucleotide binding]; other site 71421004709 DNA binding site [nucleotide binding] 71421004710 sequence specific DNA binding site [nucleotide binding]; other site 71421004711 putative cAMP binding site [chemical binding]; other site 71421004712 universal stress protein UspE; Provisional; Region: PRK11175 71421004713 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 71421004714 Ligand Binding Site [chemical binding]; other site 71421004715 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 71421004716 Ligand Binding Site [chemical binding]; other site 71421004717 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 71421004718 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 71421004719 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 71421004720 active site 71421004721 substrate binding site [chemical binding]; other site 71421004722 cosubstrate binding site; other site 71421004723 catalytic site [active] 71421004724 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 71421004725 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 71421004726 dimerization interface [polypeptide binding]; other site 71421004727 putative ATP binding site [chemical binding]; other site 71421004728 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 71421004729 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 71421004730 putative NAD(P) binding site [chemical binding]; other site 71421004731 homotetramer interface [polypeptide binding]; other site 71421004732 homodimer interface [polypeptide binding]; other site 71421004733 active site 71421004734 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 71421004735 pyridoxal 5'-phosphate binding site [chemical binding]; other site 71421004736 catalytic residue [active] 71421004737 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 71421004738 substrate binding site [chemical binding]; other site 71421004739 active site 71421004740 catalytic residues [active] 71421004741 heterodimer interface [polypeptide binding]; other site 71421004742 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK06901 71421004743 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; cl19130 71421004744 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 71421004745 putative deacylase active site [active] 71421004746 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 71421004747 DNA-binding site [nucleotide binding]; DNA binding site 71421004748 RNA-binding motif; other site 71421004749 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3140 71421004750 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3098 71421004751 similar to thiamine biosynthesis ATP pyrophosphatase; contains sulfurtransferase domain; contains frameshifts 71421004752 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 71421004753 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 71421004754 substrate binding pocket [chemical binding]; other site 71421004755 chain length determination region; other site 71421004756 substrate-Mg2+ binding site; other site 71421004757 catalytic residues [active] 71421004758 aspartate-rich region 1; other site 71421004759 active site lid residues [active] 71421004760 aspartate-rich region 2; other site 71421004761 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 71421004762 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 71421004763 TPP-binding site; other site 71421004764 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 71421004765 PYR/PP interface [polypeptide binding]; other site 71421004766 dimer interface [polypeptide binding]; other site 71421004767 TPP binding site [chemical binding]; other site 71421004768 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 71421004769 Stringent starvation protein B [General function prediction only]; Region: SspB; COG2969 71421004770 stringent starvation protein A; Provisional; Region: sspA; PRK09481 71421004771 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 71421004772 C-terminal domain interface [polypeptide binding]; other site 71421004773 putative GSH binding site (G-site) [chemical binding]; other site 71421004774 dimer interface [polypeptide binding]; other site 71421004775 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 71421004776 dimer interface [polypeptide binding]; other site 71421004777 N-terminal domain interface [polypeptide binding]; other site 71421004778 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 71421004779 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 71421004780 23S rRNA interface [nucleotide binding]; other site 71421004781 L3 interface [polypeptide binding]; other site 71421004782 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 71421004783 FAD binding site [chemical binding]; other site 71421004784 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 71421004785 AAA domain; Region: AAA_26; pfam13500 71421004786 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 71421004787 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 71421004788 homodecamer interface [polypeptide binding]; other site 71421004789 active site 71421004790 putative catalytic site residues [active] 71421004791 zinc binding site [ion binding]; other site 71421004792 GTP-CH-I/GFRP interaction surface; other site 71421004793 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 71421004794 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 71421004795 dimer interface [polypeptide binding]; other site 71421004796 putative functional site; other site 71421004797 putative MPT binding site; other site 71421004798 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 71421004799 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 71421004800 ATP binding site [chemical binding]; other site 71421004801 substrate interface [chemical binding]; other site 71421004802 dsDNA-mimic protein; Reviewed; Region: PRK05094 71421004803 Predicted membrane protein [Function unknown]; Region: COG2431 71421004804 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 71421004805 catalytic residues [active] 71421004806 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 71421004807 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 71421004808 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 71421004809 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 71421004810 Opacity family porin protein; Region: Opacity; pfam02462 71421004811 similar to transcription regulator; contains frameshifts 71421004812 RNA polymerase sigma factor; Provisional; Region: PRK12530 71421004813 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 71421004814 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 71421004815 DNA binding residues [nucleotide binding] 71421004816 similar to surface protein; contains frameshifts 71421004817 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 71421004818 Outer membrane efflux protein; Region: OEP; pfam02321 71421004819 Outer membrane efflux protein; Region: OEP; pfam02321 71421004820 Apolipoprotein A1/A4/E domain; Region: Apolipoprotein; pfam01442 71421004821 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 71421004822 catalytic core [active] 71421004823 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 71421004824 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 71421004825 active site 71421004826 substrate binding site [chemical binding]; other site 71421004827 metal binding site [ion binding]; metal-binding site 71421004828 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 71421004829 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 71421004830 substrate binding pocket [chemical binding]; other site 71421004831 dimer interface [polypeptide binding]; other site 71421004832 inhibitor binding site; inhibition site 71421004833 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 71421004834 arginine finger; other site 71421004835 Peptidase family M41; Region: Peptidase_M41; pfam01434 71421004836 similar to outer membrane receptor protein; contains frameshifts 71421004837 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 71421004838 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 71421004839 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 71421004840 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 71421004841 16S/18S rRNA binding site [nucleotide binding]; other site 71421004842 S13e-L30e interaction site [polypeptide binding]; other site 71421004843 25S rRNA binding site [nucleotide binding]; other site 71421004844 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 71421004845 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 71421004846 Walker A/P-loop; other site 71421004847 ATP binding site [chemical binding]; other site 71421004848 Q-loop/lid; other site 71421004849 ABC transporter signature motif; other site 71421004850 Walker B; other site 71421004851 D-loop; other site 71421004852 H-loop/switch region; other site 71421004853 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 71421004854 ABC-ATPase subunit interface; other site 71421004855 dimer interface [polypeptide binding]; other site 71421004856 putative PBP binding regions; other site 71421004857 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 71421004858 putative ligand binding residues [chemical binding]; other site 71421004859 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 71421004860 molybdenum transport protein ModD; Provisional; Region: PRK06096 71421004861 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 71421004862 dimerization interface [polypeptide binding]; other site 71421004863 active site 71421004864 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 71421004865 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 71421004866 Walker A/P-loop; other site 71421004867 ATP binding site [chemical binding]; other site 71421004868 Q-loop/lid; other site 71421004869 ABC transporter signature motif; other site 71421004870 Walker B; other site 71421004871 D-loop; other site 71421004872 H-loop/switch region; other site 71421004873 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 71421004874 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 71421004875 dimer interface [polypeptide binding]; other site 71421004876 ABC-ATPase subunit interface; other site 71421004877 putative PBP binding loops; other site 71421004878 cryptic Mu-like prophage; contains high g+c content 71421004879 Predicted transcriptional regulator [Transcription]; Region: COG2932 71421004880 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 71421004881 sequence-specific DNA binding site [nucleotide binding]; other site 71421004882 salt bridge; other site 71421004883 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 71421004884 Catalytic site [active] 71421004885 Predicted transcriptional regulator [Transcription]; Region: Nlp; COG3423 71421004886 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 71421004887 Mu DNA binding, I gamma subdomain; Region: HTH_Tnp_Mu_2; pfam09039 71421004888 Bacteriophage Mu transposase; Region: DDE_2; pfam02914 71421004889 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 71421004890 Mu DNA binding, I gamma subdomain; Region: HTH_Tnp_Mu_2; pfam09039 71421004891 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 71421004892 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 71421004893 non-specific DNA binding site [nucleotide binding]; other site 71421004894 salt bridge; other site 71421004895 sequence-specific DNA binding site [nucleotide binding]; other site 71421004896 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 71421004897 G1 box; other site 71421004898 GTP/Mg2+ binding site [chemical binding]; other site 71421004899 G2 box; other site 71421004900 Switch I region; other site 71421004901 Switch II region; other site 71421004902 Mu B transposition protein, C terminal; Region: Phage-MuB_C; pfam09077 71421004903 Mu-like prophage host-nuclease inhibitor protein Gam [General function prediction only]; Region: COG4396 71421004904 Mu-like prophage protein gp16 [Function unknown]; Region: COG4382 71421004905 similar to bacteriophage Mu C protein; contains frameshifts 71421004906 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cl02712 71421004907 Protein of unknown function (DUF2644); Region: DUF2644; pfam10841 71421004908 Protein of unknown function (DUF2681); Region: DUF2681; pfam10883 71421004909 phage/conjugal plasmid C-4 type zinc finger protein, TraR family; Region: C4_traR_proteo; TIGR02419 71421004910 Protein of unknown function (DUF2730); Region: DUF2730; pfam10805 71421004911 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 71421004912 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 71421004913 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 71421004914 Terminase-like family; Region: Terminase_6; pfam03237 71421004915 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 71421004916 Uncharacterized protein, homolog of phage Mu protein gp30 [Function unknown]; Region: COG2369 71421004917 Phage Mu protein F like protein; Region: Phage_Mu_F; pfam04233 71421004918 Mu-like prophage protein gpG [General function prediction only]; Region: COG5005 71421004919 Mu-like prophage I protein [General function prediction only]; Region: COG4388 71421004920 Mu-like prophage major head subunit gpT [General function prediction only]; Region: COG4397 71421004921 Mu-like prophage protein gp36 [Function unknown]; Region: COG4387 71421004922 Domain of unknown function (DUF1834); Region: DUF1834; pfam08873 71421004923 Protein of unknown function (DUF2635); Region: DUF2635; pfam10948 71421004924 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 71421004925 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 71421004926 Phage tail tube protein; Region: Tail_tube; pfam10618 71421004927 Mu-like prophage FluMu protein gp41 [Function unknown]; Region: COG4518 71421004928 Mu-like prophage protein [General function prediction only]; Region: COG3941 71421004929 tape measure domain; Region: tape_meas_nterm; TIGR02675 71421004930 pathogenicity island 1 effector protein SipB; Provisional; Region: PRK15374 71421004931 Mu-like prophage DNA circulation protein [General function prediction only]; Region: COG4228 71421004932 similar to 43 kDa tail protein; artificial frameshift 71421004933 Mu-like prophage protein gp45 [Function unknown]; Region: COG4384 71421004934 Mu-like prophage protein gp46 [Function unknown]; Region: COG4381 71421004935 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 71421004936 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3778 71421004937 Mu-like prophage protein Com [General function prediction only]; Region: Com; COG4416 71421004938 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 71421004939 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 71421004940 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 71421004941 putative ribose interaction site [chemical binding]; other site 71421004942 putative ADP binding site [chemical binding]; other site 71421004943 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 71421004944 active site 71421004945 nucleotide binding site [chemical binding]; other site 71421004946 HIGH motif; other site 71421004947 KMSKS motif; other site 71421004948 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 71421004949 putative acyl-acceptor binding pocket; other site 71421004950 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 71421004951 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 71421004952 ATP binding site [chemical binding]; other site 71421004953 Mg2+ binding site [ion binding]; other site 71421004954 G-X-G motif; other site 71421004955 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 71421004956 anchoring element; other site 71421004957 dimer interface [polypeptide binding]; other site 71421004958 ATP binding site [chemical binding]; other site 71421004959 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 71421004960 active site 71421004961 metal binding site [ion binding]; metal-binding site 71421004962 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 71421004963 DNA topoisomerase IV, A subunit, proteobacterial; Region: parC_Gneg; TIGR01062 71421004964 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 71421004965 CAP-like domain; other site 71421004966 active site 71421004967 primary dimer interface [polypeptide binding]; other site 71421004968 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 71421004969 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 71421004970 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 71421004971 RimK-like ATP-grasp domain; Region: RimK; pfam08443 71421004972 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 71421004973 GSH binding site [chemical binding]; other site 71421004974 catalytic residues [active] 71421004975 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 71421004976 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 71421004977 dimer interface [polypeptide binding]; other site 71421004978 active site 71421004979 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 71421004980 Phosphotransferase enzyme family; Region: APH; pfam01636 71421004981 active site 71421004982 substrate binding site [chemical binding]; other site 71421004983 ATP binding site [chemical binding]; other site 71421004984 dimer interface [polypeptide binding]; other site 71421004985 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 71421004986 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 71421004987 EamA-like transporter family; Region: EamA; pfam00892 71421004988 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 71421004989 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 71421004990 active site 71421004991 metal-binding site 71421004992 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 71421004993 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 71421004994 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 71421004995 tandem repeat interface [polypeptide binding]; other site 71421004996 oligomer interface [polypeptide binding]; other site 71421004997 active site residues [active] 71421004998 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 71421004999 tandem repeat interface [polypeptide binding]; other site 71421005000 oligomer interface [polypeptide binding]; other site 71421005001 active site residues [active] 71421005002 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 71421005003 putative FMN binding site [chemical binding]; other site 71421005004 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 71421005005 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 71421005006 serine/threonine transporter SstT; Provisional; Region: PRK13628 71421005007 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 71421005008 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 71421005009 Catalytic site [active] 71421005010 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 71421005011 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 71421005012 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 71421005013 FtsX-like permease family; Region: FtsX; pfam02687 71421005014 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 71421005015 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 71421005016 Walker A/P-loop; other site 71421005017 ATP binding site [chemical binding]; other site 71421005018 Q-loop/lid; other site 71421005019 ABC transporter signature motif; other site 71421005020 Walker B; other site 71421005021 D-loop; other site 71421005022 H-loop/switch region; other site 71421005023 AAA domain; Region: AAA_26; pfam13500 71421005024 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 71421005025 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 71421005026 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 71421005027 S-adenosylmethionine binding site [chemical binding]; other site 71421005028 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2830 71421005029 8-amino-7-oxononanoate synthase; Region: bioF; TIGR00858 71421005030 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 71421005031 substrate-cofactor binding pocket; other site 71421005032 pyridoxal 5'-phosphate binding site [chemical binding]; other site 71421005033 catalytic residue [active] 71421005034 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 71421005035 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 71421005036 inhibitor-cofactor binding pocket; inhibition site 71421005037 pyridoxal 5'-phosphate binding site [chemical binding]; other site 71421005038 catalytic residue [active] 71421005039 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 71421005040 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 71421005041 FtsX-like permease family; Region: FtsX; pfam02687 71421005042 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 71421005043 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 71421005044 putative ligand binding site [chemical binding]; other site 71421005045 putative NAD binding site [chemical binding]; other site 71421005046 catalytic site [active] 71421005047 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; COG2877 71421005048 Uncharacterized conserved protein [Function unknown]; Region: COG2912 71421005049 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 71421005050 HemK family putative methylases; Region: hemK_fam; TIGR00536 71421005051 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 71421005052 S-adenosylmethionine binding site [chemical binding]; other site 71421005053 Predicted membrane protein/domain [Function unknown]; Region: COG1714 71421005054 peptide chain release factor 1; Validated; Region: prfA; PRK00591 71421005055 This domain is found in peptide chain release factors; Region: PCRF; smart00937 71421005056 RF-1 domain; Region: RF-1; pfam00472 71421005057 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3101 71421005058 DNA polymerase IV; Validated; Region: PRK02406 71421005059 similar to outer membrane receptor; artificial frameshift 71421005060 Mu-like prophage protein gpG [General function prediction only]; Region: COG5005 71421005061 similar to NMA1315 and NMB1096; contains frameshifts 71421005062 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 71421005063 similar to integrase; contains frameshifts 71421005064 pyruvate kinase; Provisional; Region: PRK05826 71421005065 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 71421005066 domain interfaces; other site 71421005067 active site 71421005068 replicative DNA helicase; Validated; Region: PRK06904 71421005069 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 71421005070 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 71421005071 Walker A motif; other site 71421005072 ATP binding site [chemical binding]; other site 71421005073 Walker B motif; other site 71421005074 DNA binding loops [nucleotide binding] 71421005075 alanine racemase; Reviewed; Region: alr; PRK00053 71421005076 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 71421005077 active site 71421005078 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 71421005079 substrate binding site [chemical binding]; other site 71421005080 catalytic residues [active] 71421005081 dimer interface [polypeptide binding]; other site 71421005082 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 71421005083 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 71421005084 active site 71421005085 dimer interface [polypeptide binding]; other site 71421005086 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 71421005087 dimer interface [polypeptide binding]; other site 71421005088 active site 71421005089 similar to IS1016-V6 transposase; contains frameshifts; similar to GB:X59756 71421005090 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 71421005091 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 71421005092 active site 71421005093 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 71421005094 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 71421005095 arginyl-tRNA synthetase; Region: argS; TIGR00456 71421005096 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 71421005097 active site 71421005098 HIGH motif; other site 71421005099 KMSK motif region; other site 71421005100 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 71421005101 tRNA binding surface [nucleotide binding]; other site 71421005102 anticodon binding site; other site 71421005103 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 71421005104 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 71421005105 putative valine binding site [chemical binding]; other site 71421005106 dimer interface [polypeptide binding]; other site 71421005107 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 71421005108 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06882 71421005109 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 71421005110 PYR/PP interface [polypeptide binding]; other site 71421005111 dimer interface [polypeptide binding]; other site 71421005112 TPP binding site [chemical binding]; other site 71421005113 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 71421005114 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 71421005115 TPP-binding site [chemical binding]; other site 71421005116 dimer interface [polypeptide binding]; other site 71421005117 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 71421005118 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 71421005119 Domain in histone-like proteins of HNS family; Region: HNS; cl19571 71421005120 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 71421005121 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 71421005122 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 71421005123 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 71421005124 putative active site [active] 71421005125 putative substrate binding site [chemical binding]; other site 71421005126 putative cosubstrate binding site; other site 71421005127 catalytic site [active] 71421005128 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 71421005129 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 71421005130 hinge; other site 71421005131 active site 71421005132 recombination factor protein RarA; Reviewed; Region: PRK13342 71421005133 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 71421005134 Walker A motif; other site 71421005135 ATP binding site [chemical binding]; other site 71421005136 Walker B motif; other site 71421005137 arginine finger; other site 71421005138 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 71421005139 periplasmic chaperone LolA; Region: lolA; TIGR00547 71421005140 similar to DNA segregation ATPase; contains frameshifts 71421005141 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 71421005142 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 71421005143 putative DNA binding site [nucleotide binding]; other site 71421005144 dimerization interface [polypeptide binding]; other site 71421005145 putative Zn2+ binding site [ion binding]; other site 71421005146 AsnC family; Region: AsnC_trans_reg; pfam01037 71421005147 DNA repair protein RadA; Region: sms; TIGR00416 71421005148 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 71421005149 Walker A motif/ATP binding site; other site 71421005150 ATP binding site [chemical binding]; other site 71421005151 Walker B motif; other site 71421005152 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 71421005153 Uncharacterized conserved protein [Function unknown]; Region: COG3025 71421005154 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 71421005155 putative active site [active] 71421005156 putative metal binding residues [ion binding]; other site 71421005157 signature motif; other site 71421005158 putative triphosphate binding site [ion binding]; other site 71421005159 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3219 71421005160 Protein of unknown function (DUF692); Region: DUF692; pfam05114 71421005161 Uncharacterized low-complexity protein [Function unknown]; Region: COG3767 71421005162 Predicted membrane protein [Function unknown]; Region: COG2259 71421005163 TIGR00153 family protein; Region: TIGR00153 71421005164 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 71421005165 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 71421005166 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 71421005167 Bacterial SH3 domain homologues; Region: SH3b; smart00287 71421005168 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 71421005169 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 71421005170 active site 71421005171 NTP binding site [chemical binding]; other site 71421005172 metal binding triad [ion binding]; metal-binding site 71421005173 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 71421005174 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 71421005175 Zn2+ binding site [ion binding]; other site 71421005176 Mg2+ binding site [ion binding]; other site 71421005177 outer membrane lipoprotein LolB; Region: lolB; TIGR00548 71421005178 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 71421005179 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 71421005180 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 71421005181 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 71421005182 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 71421005183 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 71421005184 active site 71421005185 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 71421005186 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 71421005187 active site 71421005188 HIGH motif; other site 71421005189 dimer interface [polypeptide binding]; other site 71421005190 KMSKS motif; other site 71421005191 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 71421005192 RNA binding surface [nucleotide binding]; other site 71421005193 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 71421005194 multidrug efflux protein; Reviewed; Region: PRK01766 71421005195 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 71421005196 cation binding site [ion binding]; other site 71421005197 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 71421005198 Lumazine binding domain; Region: Lum_binding; pfam00677 71421005199 Lumazine binding domain; Region: Lum_binding; pfam00677 71421005200 aminopeptidase N; Provisional; Region: pepN; PRK14015 71421005201 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 71421005202 active site 71421005203 Zn binding site [ion binding]; other site 71421005204 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 71421005205 Phosphoribosylaminoimidazole carboxylase (NCAIR synthetase) [Nucleotide transport and metabolism]; Region: PurK; COG0026 71421005206 ATP-grasp domain; Region: ATP-grasp; pfam02222 71421005207 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 71421005208 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 71421005209 pyridoxal 5'-phosphate binding site [chemical binding]; other site 71421005210 homodimer interface [polypeptide binding]; other site 71421005211 catalytic residue [active] 71421005212 similar to HypE; fragment 71421005213 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 71421005214 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 71421005215 Walker A/P-loop; other site 71421005216 ATP binding site [chemical binding]; other site 71421005217 Q-loop/lid; other site 71421005218 ABC transporter signature motif; other site 71421005219 Walker B; other site 71421005220 D-loop; other site 71421005221 H-loop/switch region; other site 71421005222 similar to ABC-type cobalt transport system permease component; contains frameshifts 71421005223 cobalt transport protein CbiM; Validated; Region: PRK06265 71421005224 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 71421005225 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 71421005226 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 71421005227 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 71421005228 DNA binding residues [nucleotide binding] 71421005229 dimer interface [polypeptide binding]; other site 71421005230 putative metal binding site [ion binding]; other site 71421005231 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 71421005232 Sel1-like repeats; Region: SEL1; smart00671 71421005233 Sel1-like repeats; Region: SEL1; smart00671 71421005234 YwiC-like protein; Region: YwiC; pfam14256 71421005235 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 71421005236 homotrimer interaction site [polypeptide binding]; other site 71421005237 putative active site [active] 71421005238 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 71421005239 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 71421005240 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 71421005241 5S rRNA interface [nucleotide binding]; other site 71421005242 CTC domain interface [polypeptide binding]; other site 71421005243 L16 interface [polypeptide binding]; other site 71421005244 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 71421005245 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 71421005246 substrate binding site [chemical binding]; other site 71421005247 nucleotide binding site [chemical binding]; other site 71421005248 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 71421005249 dimer interface [polypeptide binding]; other site 71421005250 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 71421005251 GDP-binding site [chemical binding]; other site 71421005252 ACT binding site; other site 71421005253 IMP binding site; other site 71421005254 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 71421005255 Tetrahydrodipicolinate N-succinyltransferase N-terminal; Region: THDPS_N_2; pfam14805 71421005256 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 71421005257 trimer interface [polypeptide binding]; other site 71421005258 active site 71421005259 substrate binding site [chemical binding]; other site 71421005260 CoA binding site [chemical binding]; other site 71421005261 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 71421005262 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 71421005263 DNA binding site [nucleotide binding] 71421005264 domain linker motif; other site 71421005265 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 71421005266 dimerization interface [polypeptide binding]; other site 71421005267 ligand binding site [chemical binding]; other site 71421005268 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 71421005269 Predicted ATPase [General function prediction only]; Region: COG3106 71421005270 antimicrobial peptide ABC transporter periplasmic binding protein SapA; Provisional; Region: PRK15109 71421005271 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 71421005272 peptide binding site [polypeptide binding]; other site 71421005273 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapB; COG4168 71421005274 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 71421005275 dimer interface [polypeptide binding]; other site 71421005276 conserved gate region; other site 71421005277 putative PBP binding loops; other site 71421005278 ABC-ATPase subunit interface; other site 71421005279 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 71421005280 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 71421005281 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 71421005282 dimer interface [polypeptide binding]; other site 71421005283 conserved gate region; other site 71421005284 putative PBP binding loops; other site 71421005285 ABC-ATPase subunit interface; other site 71421005286 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 71421005287 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 71421005288 Walker A/P-loop; other site 71421005289 ATP binding site [chemical binding]; other site 71421005290 Q-loop/lid; other site 71421005291 ABC transporter signature motif; other site 71421005292 Walker B; other site 71421005293 D-loop; other site 71421005294 H-loop/switch region; other site 71421005295 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 71421005296 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 71421005297 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 71421005298 Walker A/P-loop; other site 71421005299 ATP binding site [chemical binding]; other site 71421005300 Q-loop/lid; other site 71421005301 ABC transporter signature motif; other site 71421005302 Walker B; other site 71421005303 D-loop; other site 71421005304 H-loop/switch region; other site 71421005305 conserved hypothetical integral membrane protein; Region: TIGR00698 71421005306 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 71421005307 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 71421005308 dimerization interface 3.5A [polypeptide binding]; other site 71421005309 active site 71421005310 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 71421005311 AMP binding site [chemical binding]; other site 71421005312 metal binding site [ion binding]; metal-binding site 71421005313 active site 71421005314 cytidylate kinase; Region: cmk; TIGR00017 71421005315 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 71421005316 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 71421005317 Walker A/P-loop; other site 71421005318 ATP binding site [chemical binding]; other site 71421005319 Q-loop/lid; other site 71421005320 CMP-binding site; other site 71421005321 The sites determining sugar specificity; other site 71421005322 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 71421005323 active site 71421005324 multimer interface [polypeptide binding]; other site 71421005325 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 71421005326 predicted active site [active] 71421005327 catalytic triad [active] 71421005328 D-lactate dehydrogenase; Provisional; Region: PRK11183 71421005329 FAD binding domain; Region: FAD_binding_4; cl19922 71421005330 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 71421005331 Type I restriction and modification enzyme - subunit R C terminal; Region: EcoR124_C; pfam12008 71421005332 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 71421005333 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 71421005334 NlpC/P60 family; Region: NLPC_P60; pfam00877 71421005335 Putative modulator of DNA gyrase; Region: PmbA_TldD; cl19356 71421005336 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 71421005337 putative SAM binding site [chemical binding]; other site 71421005338 putative homodimer interface [polypeptide binding]; other site 71421005339 LppC putative lipoprotein; Region: LppC; pfam04348 71421005340 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 71421005341 putative ligand binding site [chemical binding]; other site 71421005342 TIGR00252 family protein; Region: TIGR00252 71421005343 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 71421005344 dimer interface [polypeptide binding]; other site 71421005345 active site 71421005346 outer membrane lipoprotein; Provisional; Region: PRK11023 71421005347 BON domain; Region: BON; pfam04972 71421005348 BON domain; Region: BON; pfam04972 71421005349 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 71421005350 ATP cone domain; Region: ATP-cone; pfam03477 71421005351 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 71421005352 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 71421005353 dimer interface [polypeptide binding]; other site 71421005354 putative radical transfer pathway; other site 71421005355 diiron center [ion binding]; other site 71421005356 tyrosyl radical; other site 71421005357 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 71421005358 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 71421005359 E3 interaction surface; other site 71421005360 lipoyl attachment site [posttranslational modification]; other site 71421005361 e3 binding domain; Region: E3_binding; pfam02817 71421005362 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 71421005363 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 71421005364 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 71421005365 TPP-binding site [chemical binding]; other site 71421005366 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 71421005367 PYR/PP interface [polypeptide binding]; other site 71421005368 dimer interface [polypeptide binding]; other site 71421005369 TPP binding site [chemical binding]; other site 71421005370 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 71421005371 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 71421005372 active site 71421005373 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 71421005374 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 71421005375 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 71421005376 carboxy-terminal protease; Provisional; Region: PRK11186 71421005377 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 71421005378 protein binding site [polypeptide binding]; other site 71421005379 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 71421005380 Catalytic dyad [active] 71421005381 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 71421005382 ProP expression regulator; Provisional; Region: PRK04950 71421005383 integral membrane protein, PqiA family; Region: pqiA_fam; TIGR00155 71421005384 Lysine biosynthesis protein LysW; Region: LysW; cl11748 71421005385 Zn binding site [ion binding]; other site 71421005386 Paraquat-inducible protein A; Region: PqiA; pfam04403 71421005387 zinc-ribbons; Region: zinc-ribbons_6; pfam07191 71421005388 Paraquat-inducible protein A; Region: PqiA; pfam04403 71421005389 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 71421005390 mce related protein; Region: MCE; pfam02470 71421005391 mce related protein; Region: MCE; pfam02470 71421005392 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 71421005393 mce related protein; Region: MCE; pfam02470 71421005394 mce related protein; Region: MCE; pfam02470 71421005395 mce related protein; Region: MCE; pfam02470 71421005396 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 71421005397 MoaE homodimer interface [polypeptide binding]; other site 71421005398 MoaD interaction [polypeptide binding]; other site 71421005399 active site residues [active] 71421005400 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 71421005401 MoaE interaction surface [polypeptide binding]; other site 71421005402 MoeB interaction surface [polypeptide binding]; other site 71421005403 thiocarboxylated glycine; other site 71421005404 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 71421005405 trimer interface [polypeptide binding]; other site 71421005406 dimer interface [polypeptide binding]; other site 71421005407 putative active site [active] 71421005408 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 71421005409 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 71421005410 FeS/SAM binding site; other site 71421005411 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 71421005412 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 71421005413 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 71421005414 Hemerythrin-like domain; Region: Hr-like; cd12108 71421005415 Fe binding site [ion binding]; other site 71421005416 KpsF/GutQ family protein; Region: kpsF; TIGR00393 71421005417 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 71421005418 putative active site [active] 71421005419 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 71421005420 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 71421005421 active site 71421005422 motif I; other site 71421005423 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 71421005424 motif II; other site 71421005425 TIGR01666 family membrane protein; Region: YCCS 71421005426 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 71421005427 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 71421005428 Protein-interacting Bro1-like domain of mammalian Alix and related domains; Region: BRO1_Alix_like; cl14649 71421005429 hypothetical protein; Provisional; Region: PRK01904 71421005430 putative inner membrane peptidase; Provisional; Region: PRK11778 71421005431 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 71421005432 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 71421005433 tandem repeat interface [polypeptide binding]; other site 71421005434 oligomer interface [polypeptide binding]; other site 71421005435 active site residues [active] 71421005436 electron transport complex protein RsxA; Provisional; Region: PRK05151 71421005437 electron transport complex protein RnfB; Provisional; Region: PRK05113 71421005438 Putative Fe-S cluster; Region: FeS; pfam04060 71421005439 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 71421005440 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 71421005441 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 71421005442 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 71421005443 SLBB domain; Region: SLBB; pfam10531 71421005444 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 71421005445 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 71421005446 electron transport complex protein RnfG; Validated; Region: PRK01908 71421005447 electron transport complex RsxE subunit; Provisional; Region: PRK12405 71421005448 endonuclease III; Provisional; Region: PRK10702 71421005449 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 71421005450 minor groove reading motif; other site 71421005451 helix-hairpin-helix signature motif; other site 71421005452 substrate binding pocket [chemical binding]; other site 71421005453 active site 71421005454 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 71421005455 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 71421005456 Na2 binding site [ion binding]; other site 71421005457 putative substrate binding site 1 [chemical binding]; other site 71421005458 Na binding site 1 [ion binding]; other site 71421005459 putative substrate binding site 2 [chemical binding]; other site 71421005460 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 71421005461 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 71421005462 Walker A/P-loop; other site 71421005463 ATP binding site [chemical binding]; other site 71421005464 Q-loop/lid; other site 71421005465 ABC transporter signature motif; other site 71421005466 Walker B; other site 71421005467 D-loop; other site 71421005468 H-loop/switch region; other site 71421005469 TOBE domain; Region: TOBE; cl01440 71421005470 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 71421005471 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 71421005472 dimer interface [polypeptide binding]; other site 71421005473 conserved gate region; other site 71421005474 putative PBP binding loops; other site 71421005475 ABC-ATPase subunit interface; other site 71421005476 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 71421005477 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 71421005478 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 71421005479 molybdenum-pterin binding domain; Region: Mop; TIGR00638 71421005480 GT2_AmsE_like is involved in exopolysaccharide amylovora biosynthesis; Region: GT2_AmsE_like; cd04195 71421005481 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 71421005482 colanic acid biosynthesis glycosyl transferase WcaA; Region: WcaA; TIGR04017 71421005483 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 71421005484 active site 71421005485 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 71421005486 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 71421005487 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 71421005488 putative ADP-binding pocket [chemical binding]; other site 71421005489 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 71421005490 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 71421005491 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 71421005492 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 71421005493 putative active site [active] 71421005494 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 71421005495 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 71421005496 THF binding site; other site 71421005497 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 71421005498 substrate binding site [chemical binding]; other site 71421005499 THF binding site; other site 71421005500 zinc-binding site [ion binding]; other site 71421005501 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 71421005502 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; cl12074 71421005503 multifunctional aminopeptidase A; Provisional; Region: PRK00913 71421005504 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 71421005505 interface (dimer of trimers) [polypeptide binding]; other site 71421005506 Substrate-binding/catalytic site; other site 71421005507 Zn-binding sites [ion binding]; other site 71421005508 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 71421005509 sensor protein QseC; Provisional; Region: PRK10337 71421005510 HAMP domain; Region: HAMP; pfam00672 71421005511 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 71421005512 dimer interface [polypeptide binding]; other site 71421005513 phosphorylation site [posttranslational modification] 71421005514 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 71421005515 ATP binding site [chemical binding]; other site 71421005516 Mg2+ binding site [ion binding]; other site 71421005517 G-X-G motif; other site 71421005518 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 71421005519 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 71421005520 active site 71421005521 phosphorylation site [posttranslational modification] 71421005522 intermolecular recognition site; other site 71421005523 dimerization interface [polypeptide binding]; other site 71421005524 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 71421005525 DNA binding site [nucleotide binding] 71421005526 TIGR00156 family protein; Region: TIGR00156 71421005527 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 71421005528 HPr interaction site; other site 71421005529 glycerol kinase (GK) interaction site [polypeptide binding]; other site 71421005530 active site 71421005531 phosphorylation site [posttranslational modification] 71421005532 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 71421005533 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 71421005534 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 71421005535 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 71421005536 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 71421005537 dimerization domain swap beta strand [polypeptide binding]; other site 71421005538 regulatory protein interface [polypeptide binding]; other site 71421005539 active site 71421005540 regulatory phosphorylation site [posttranslational modification]; other site 71421005541 GTPase RsgA; Reviewed; Region: PRK12288 71421005542 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 71421005543 RNA binding site [nucleotide binding]; other site 71421005544 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 71421005545 GTPase/Zn-binding domain interface [polypeptide binding]; other site 71421005546 GTP/Mg2+ binding site [chemical binding]; other site 71421005547 G4 box; other site 71421005548 G5 box; other site 71421005549 G1 box; other site 71421005550 Switch I region; other site 71421005551 G2 box; other site 71421005552 G3 box; other site 71421005553 Switch II region; other site 71421005554 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 71421005555 catalytic site [active] 71421005556 putative active site [active] 71421005557 putative substrate binding site [chemical binding]; other site 71421005558 dimer interface [polypeptide binding]; other site 71421005559 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 71421005560 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 71421005561 Mg++ binding site [ion binding]; other site 71421005562 putative catalytic motif [active] 71421005563 substrate binding site [chemical binding]; other site 71421005564 PII uridylyl-transferase; Provisional; Region: glnD; PRK01759 71421005565 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 71421005566 metal binding triad; other site 71421005567 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 71421005568 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 71421005569 Zn2+ binding site [ion binding]; other site 71421005570 Mg2+ binding site [ion binding]; other site 71421005571 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 71421005572 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 71421005573 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 71421005574 Helix-turn-helix domain; Region: HTH_28; pfam13518 71421005575 Helix-turn-helix domain; Region: HTH_28; pfam13518 71421005576 putative transposase OrfB; Reviewed; Region: PHA02517 71421005577 HTH-like domain; Region: HTH_21; pfam13276 71421005578 Integrase core domain; Region: rve; pfam00665 71421005579 Integrase core domain; Region: rve_2; pfam13333 71421005580 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 71421005581 active site 71421005582 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 71421005583 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3112 71421005584 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 71421005585 Bifunctional transglycosylase second domain; Region: UB2H; pfam14814 71421005586 Transglycosylase; Region: Transgly; pfam00912 71421005587 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 71421005588 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 71421005589 ATP binding site [chemical binding]; other site 71421005590 active site 71421005591 phosphoribosylaminoimidazole-succinocarboxamide synthase; Provisional; Region: PRK13959 71421005592 substrate binding site [chemical binding]; other site 71421005593 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 71421005594 ANP binding site [chemical binding]; other site 71421005595 Substrate Binding Site II [chemical binding]; other site 71421005596 Substrate Binding Site I [chemical binding]; other site 71421005597 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 71421005598 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 71421005599 putative active site [active] 71421005600 biotin-dependent carboxylase uncharacterized domain; Region: urea_amlyse_rel; TIGR00724 71421005601 sensor histidine kinase inhibitor, KipI family; Region: TIGR00370 71421005602 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 71421005603 HiaBD2_N domain of Trimeric autotransporter adhesin (GIN); Region: HiaBD2; pfam15403 71421005604 YadA-like C-terminal region; Region: YadA_anchor; pfam03895 71421005605 similar to adhesin; similar to HI1731a; contains frameshifts 71421005606 exoribonuclease II; Provisional; Region: PRK05054 71421005607 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 71421005608 RNB domain; Region: RNB; pfam00773 71421005609 S1 RNA binding domain; Region: S1; pfam00575 71421005610 RNA binding site [nucleotide binding]; other site 71421005611 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 71421005612 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 71421005613 NAD binding site [chemical binding]; other site 71421005614 homotetramer interface [polypeptide binding]; other site 71421005615 homodimer interface [polypeptide binding]; other site 71421005616 substrate binding site [chemical binding]; other site 71421005617 active site 71421005618 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 71421005619 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 71421005620 G1 box; other site 71421005621 putative GEF interaction site [polypeptide binding]; other site 71421005622 GTP/Mg2+ binding site [chemical binding]; other site 71421005623 Switch I region; other site 71421005624 G2 box; other site 71421005625 G3 box; other site 71421005626 Switch II region; other site 71421005627 G4 box; other site 71421005628 G5 box; other site 71421005629 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 71421005630 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 71421005631 4-azaleucine resistance probable transporter AzlC; Region: azlC; TIGR00346 71421005632 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 71421005633 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 71421005634 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 71421005635 putative dimerization interface [polypeptide binding]; other site 71421005636 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 71421005637 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 71421005638 active site 71421005639 substrate binding site [chemical binding]; other site 71421005640 FMN binding site [chemical binding]; other site 71421005641 putative catalytic residues [active] 71421005642 Glutamate racemase [Cell envelope biogenesis, outer membrane]; Region: MurI; COG0796 71421005643 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 71421005644 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 71421005645 generic binding surface II; other site 71421005646 ssDNA binding site; other site 71421005647 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 71421005648 ATP binding site [chemical binding]; other site 71421005649 putative Mg++ binding site [ion binding]; other site 71421005650 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 71421005651 nucleotide binding region [chemical binding]; other site 71421005652 ATP-binding site [chemical binding]; other site 71421005653 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 71421005654 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 71421005655 Zn2+ binding site [ion binding]; other site 71421005656 Mg2+ binding site [ion binding]; other site 71421005657 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 71421005658 synthetase active site [active] 71421005659 NTP binding site [chemical binding]; other site 71421005660 metal binding site [ion binding]; metal-binding site 71421005661 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 71421005662 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 71421005663 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 71421005664 Guanylate kinase; Region: Guanylate_kin; pfam00625 71421005665 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 71421005666 catalytic site [active] 71421005667 G-X2-G-X-G-K; other site