-- dump date 20140618_192555 -- class Genbank::misc_feature -- table misc_feature_note -- id note 634176000001 FOG: WD40 repeat [General function prediction only]; Region: COG2319 634176000002 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 634176000003 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 634176000004 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 634176000005 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 634176000006 active site 634176000007 homodimer interface [polypeptide binding]; other site 634176000008 homotetramer interface [polypeptide binding]; other site 634176000009 Nucleoside diphosphate kinases (NDP kinases, NDPks): NDP kinases, responsible for the synthesis of nucleoside triphosphates (NTPs), are involved in numerous regulatory processes associated with proliferation, development, and differentiation. They are...; Region: NDPk; cl00335 634176000010 Radical SAM superfamily; Region: Radical_SAM; pfam04055 634176000011 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 634176000012 FeS/SAM binding site; other site 634176000013 TPR repeat; Region: TPR_11; pfam13414 634176000014 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 634176000015 binding surface 634176000016 TPR motif; other site 634176000017 TPR repeat; Region: TPR_11; pfam13414 634176000018 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 634176000019 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 634176000020 non-specific DNA binding site [nucleotide binding]; other site 634176000021 salt bridge; other site 634176000022 sequence-specific DNA binding site [nucleotide binding]; other site 634176000023 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 634176000024 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 634176000025 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 634176000026 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 634176000027 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 634176000028 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 634176000029 dimer interface [polypeptide binding]; other site 634176000030 motif 1; other site 634176000031 active site 634176000032 motif 2; other site 634176000033 motif 3; other site 634176000034 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 634176000035 anticodon binding site; other site 634176000036 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 634176000037 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 634176000038 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 634176000039 binding surface 634176000040 TPR motif; other site 634176000041 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 634176000042 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 634176000043 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 634176000044 Walker A motif; other site 634176000045 ATP binding site [chemical binding]; other site 634176000046 Walker B motif; other site 634176000047 arginine finger; other site 634176000048 uracil-xanthine permease; Region: ncs2; TIGR00801 634176000049 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634176000050 active site 634176000051 periplasmic folding chaperone; Provisional; Region: PRK10788 634176000052 SurA N-terminal domain; Region: SurA_N_3; cl07813 634176000053 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 634176000054 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 634176000055 Found in ATP-dependent protease La (LON); Region: LON; smart00464 634176000056 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 634176000057 Walker A motif; other site 634176000058 ATP binding site [chemical binding]; other site 634176000059 Walker B motif; other site 634176000060 arginine finger; other site 634176000061 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 634176000062 putative transporter; Provisional; Region: PRK11660 634176000063 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 634176000064 Sulfate transporter family; Region: Sulfate_transp; pfam00916 634176000065 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 634176000066 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 634176000067 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 634176000068 active site 634176000069 intersubunit interface [polypeptide binding]; other site 634176000070 catalytic residue [active] 634176000071 superoxide dismutase; Provisional; Region: PRK10925 634176000072 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 634176000073 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 634176000074 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 634176000075 Malic enzyme, N-terminal domain; Region: malic; pfam00390 634176000076 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 634176000077 putative NAD(P) binding site [chemical binding]; other site 634176000078 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 634176000079 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 634176000080 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 634176000081 RNA binding surface [nucleotide binding]; other site 634176000082 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 634176000083 active site 634176000084 uracil binding [chemical binding]; other site 634176000085 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 634176000086 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 634176000087 putative substrate translocation pore; other site 634176000088 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 634176000089 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634176000090 Walker A/P-loop; other site 634176000091 ATP binding site [chemical binding]; other site 634176000092 Q-loop/lid; other site 634176000093 ABC transporter signature motif; other site 634176000094 Walker B; other site 634176000095 D-loop; other site 634176000096 H-loop/switch region; other site 634176000097 heme exporter protein CcmB; Region: ccmB; TIGR01190 634176000098 heme exporter protein CcmC; Region: ccmC; TIGR01191 634176000099 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 634176000100 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 634176000101 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 634176000102 thiol:disulfide interchange protein DsbE; Provisional; Region: PRK15412 634176000103 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 634176000104 catalytic residues [active] 634176000105 central insert; other site 634176000106 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 634176000107 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 634176000108 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 634176000109 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 634176000110 TPR motif; other site 634176000111 binding surface 634176000112 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 634176000113 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 634176000114 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 634176000115 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 634176000116 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 634176000117 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 634176000118 cytochrome c nitrate reductase biogenesis protein NrfE; Region: cyt_nit_nrfE; TIGR03145 634176000119 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 634176000120 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 634176000121 catalytic residues [active] 634176000122 central insert; other site 634176000123 cytochrome c nitrite reductase, accessory protein NrfF; Region: cyt_nit_nrfF; TIGR03147 634176000124 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 634176000125 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 634176000126 binding surface 634176000127 TPR motif; other site 634176000128 Predicted flavoproteins [General function prediction only]; Region: COG2081 634176000129 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634176000130 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 634176000131 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 634176000132 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 634176000133 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 634176000134 metal-binding site [ion binding] 634176000135 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 634176000136 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 634176000137 E-class dimer interface [polypeptide binding]; other site 634176000138 P-class dimer interface [polypeptide binding]; other site 634176000139 active site 634176000140 Cu2+ binding site [ion binding]; other site 634176000141 Zn2+ binding site [ion binding]; other site 634176000142 Methyltransferase domain; Region: Methyltransf_31; pfam13847 634176000143 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 634176000144 S-adenosylmethionine binding site [chemical binding]; other site 634176000145 recF protein; Region: recf; TIGR00611 634176000146 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634176000147 Walker A/P-loop; other site 634176000148 ATP binding site [chemical binding]; other site 634176000149 Q-loop/lid; other site 634176000150 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634176000151 ABC transporter signature motif; other site 634176000152 Walker B; other site 634176000153 D-loop; other site 634176000154 H-loop/switch region; other site 634176000155 DNA polymerase III subunit beta; Validated; Region: PRK05643 634176000156 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 634176000157 putative DNA binding surface [nucleotide binding]; other site 634176000158 dimer interface [polypeptide binding]; other site 634176000159 beta-clamp/clamp loader binding surface; other site 634176000160 beta-clamp/translesion DNA polymerase binding surface; other site 634176000161 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 634176000162 DnaA N-terminal domain; Region: DnaA_N; pfam11638 634176000163 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 634176000164 Walker A motif; other site 634176000165 ATP binding site [chemical binding]; other site 634176000166 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 634176000167 Walker B motif; other site 634176000168 arginine finger; other site 634176000169 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 634176000170 DnaA box-binding interface [nucleotide binding]; other site 634176000171 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 634176000172 ribonuclease P; Reviewed; Region: rnpA; PRK01732 634176000173 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 634176000174 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 634176000175 trmE is a tRNA modification GTPase; Region: trmE; cd04164 634176000176 G1 box; other site 634176000177 GTP/Mg2+ binding site [chemical binding]; other site 634176000178 Switch I region; other site 634176000179 G2 box; other site 634176000180 Switch II region; other site 634176000181 G3 box; other site 634176000182 G4 box; other site 634176000183 G5 box; other site 634176000184 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 634176000185 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 634176000186 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 634176000187 FeS/SAM binding site; other site 634176000188 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 634176000189 ATP cone domain; Region: ATP-cone; pfam03477 634176000190 Class III ribonucleotide reductase; Region: RNR_III; cd01675 634176000191 effector binding site; other site 634176000192 active site 634176000193 Zn binding site [ion binding]; other site 634176000194 glycine loop; other site 634176000195 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 634176000196 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 634176000197 trimer interface [polypeptide binding]; other site 634176000198 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 634176000199 trimer interface [polypeptide binding]; other site 634176000200 Haemagglutinin; Region: HIM; pfam05662 634176000201 YadA-like C-terminal region; Region: YadA; pfam03895 634176000202 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 634176000203 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 634176000204 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 634176000205 acyl-activating enzyme (AAE) consensus motif; other site 634176000206 putative AMP binding site [chemical binding]; other site 634176000207 putative active site [active] 634176000208 putative CoA binding site [chemical binding]; other site 634176000209 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 634176000210 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 634176000211 putative active site [active] 634176000212 putative PHP Thumb interface [polypeptide binding]; other site 634176000213 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 634176000214 generic binding surface I; other site 634176000215 generic binding surface II; other site 634176000216 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 634176000217 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 634176000218 putative active site [active] 634176000219 putative dimer interface [polypeptide binding]; other site 634176000220 glutamate dehydrogenase; Provisional; Region: PRK09414 634176000221 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 634176000222 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 634176000223 NAD(P) binding site [chemical binding]; other site 634176000224 argininosuccinate lyase; Provisional; Region: PRK04833 634176000225 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 634176000226 active sites [active] 634176000227 tetramer interface [polypeptide binding]; other site 634176000228 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 634176000229 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 634176000230 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 634176000231 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 634176000232 HIGH motif; other site 634176000233 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 634176000234 active site 634176000235 KMSKS motif; other site 634176000236 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 634176000237 DNA-binding site [nucleotide binding]; DNA binding site 634176000238 RNA-binding motif; other site 634176000239 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 634176000240 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 634176000241 substrate binding site [chemical binding]; other site 634176000242 dimer interface [polypeptide binding]; other site 634176000243 ATP binding site [chemical binding]; other site 634176000244 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 634176000245 putative active site [active] 634176000246 Ap4A binding site [chemical binding]; other site 634176000247 nudix motif; other site 634176000248 putative metal binding site [ion binding]; other site 634176000249 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 634176000250 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 634176000251 thymidylate synthase; Reviewed; Region: thyA; PRK01827 634176000252 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 634176000253 dimerization interface [polypeptide binding]; other site 634176000254 active site 634176000255 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 634176000256 nucleoside/Zn binding site; other site 634176000257 dimer interface [polypeptide binding]; other site 634176000258 catalytic motif [active] 634176000259 Der GTPase activator; Provisional; Region: PRK05244 634176000260 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 634176000261 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 634176000262 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 634176000263 FeS/SAM binding site; other site 634176000264 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 634176000265 triosephosphate isomerase; Provisional; Region: PRK14567 634176000266 substrate binding site [chemical binding]; other site 634176000267 dimer interface [polypeptide binding]; other site 634176000268 catalytic triad [active] 634176000269 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 634176000270 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 634176000271 substrate binding site [chemical binding]; other site 634176000272 oxyanion hole (OAH) forming residues; other site 634176000273 trimer interface [polypeptide binding]; other site 634176000274 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 634176000275 active site 634176000276 NTP binding site [chemical binding]; other site 634176000277 metal binding triad [ion binding]; metal-binding site 634176000278 antibiotic binding site [chemical binding]; other site 634176000279 O-succinylbenzoate synthase; Provisional; Region: PRK05105 634176000280 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 634176000281 active site 634176000282 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 634176000283 Dehydroquinase class II; Region: DHquinase_II; pfam01220 634176000284 active site 634176000285 trimer interface [polypeptide binding]; other site 634176000286 dimer interface [polypeptide binding]; other site 634176000287 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 634176000288 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 634176000289 carboxyltransferase (CT) interaction site; other site 634176000290 biotinylation site [posttranslational modification]; other site 634176000291 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 634176000292 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 634176000293 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 634176000294 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 634176000295 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 634176000296 GTPase Era; Reviewed; Region: era; PRK00089 634176000297 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 634176000298 G1 box; other site 634176000299 GTP/Mg2+ binding site [chemical binding]; other site 634176000300 Switch I region; other site 634176000301 G2 box; other site 634176000302 Switch II region; other site 634176000303 G3 box; other site 634176000304 G4 box; other site 634176000305 G5 box; other site 634176000306 KH domain; Region: KH_2; pfam07650 634176000307 ribonuclease III; Reviewed; Region: rnc; PRK00102 634176000308 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 634176000309 dimerization interface [polypeptide binding]; other site 634176000310 active site 634176000311 metal binding site [ion binding]; metal-binding site 634176000312 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 634176000313 dsRNA binding site [nucleotide binding]; other site 634176000314 signal peptidase I; Provisional; Region: PRK10861 634176000315 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 634176000316 Catalytic site [active] 634176000317 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 634176000318 Catalytic site [active] 634176000319 GTP-binding protein LepA; Provisional; Region: PRK05433 634176000320 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 634176000321 G1 box; other site 634176000322 putative GEF interaction site [polypeptide binding]; other site 634176000323 GTP/Mg2+ binding site [chemical binding]; other site 634176000324 Switch I region; other site 634176000325 G2 box; other site 634176000326 G3 box; other site 634176000327 Switch II region; other site 634176000328 G4 box; other site 634176000329 G5 box; other site 634176000330 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 634176000331 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 634176000332 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 634176000333 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 634176000334 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 634176000335 ligand binding site [chemical binding]; other site 634176000336 active site 634176000337 UGI interface [polypeptide binding]; other site 634176000338 catalytic site [active] 634176000339 hypothetical protein; Validated; Region: PRK02101 634176000340 Cation efflux family; Region: Cation_efflux; cl00316 634176000341 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 634176000342 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 634176000343 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 634176000344 active site 634176000345 ADP/pyrophosphate binding site [chemical binding]; other site 634176000346 dimerization interface [polypeptide binding]; other site 634176000347 allosteric effector site; other site 634176000348 fructose-1,6-bisphosphate binding site; other site 634176000349 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 634176000350 Methyltransferase domain; Region: Methyltransf_26; pfam13659 634176000351 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 634176000352 beta-hexosaminidase; Provisional; Region: PRK05337 634176000353 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 634176000354 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 634176000355 putative dimer interface [polypeptide binding]; other site 634176000356 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 634176000357 nucleotide binding site/active site [active] 634176000358 HIT family signature motif; other site 634176000359 catalytic residue [active] 634176000360 formate transporter FocA; Region: formate_focA; TIGR04060 634176000361 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 634176000362 Pyruvate formate lyase 1; Region: PFL1; cd01678 634176000363 coenzyme A binding site [chemical binding]; other site 634176000364 active site 634176000365 catalytic residues [active] 634176000366 glycine loop; other site 634176000367 Uncharacterized conserved protein [Function unknown]; Region: COG1359 634176000368 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 634176000369 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 634176000370 FeS/SAM binding site; other site 634176000371 EamA-like transporter family; Region: EamA; pfam00892 634176000372 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 634176000373 EamA-like transporter family; Region: EamA; pfam00892 634176000374 FtsI repressor; Provisional; Region: PRK10883 634176000375 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 634176000376 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 634176000377 putative acyl-acceptor binding pocket; other site 634176000378 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 634176000379 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 634176000380 putative active site [active] 634176000381 putative metal binding site [ion binding]; other site 634176000382 Uncharacterized integral membrane protein (DUF2301); Region: DUF2301; cl02241 634176000383 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 634176000384 YheO-like PAS domain; Region: PAS_6; pfam08348 634176000385 HTH domain; Region: HTH_22; pfam13309 634176000386 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 634176000387 aromatic amino acid transport protein; Region: araaP; TIGR00837 634176000388 tyrosine phenol-lyase; Provisional; Region: PRK13237 634176000389 Tryptophanase family (Tnase). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to tryptophanase (Tnase) and tyrosine phenol-lyase (TPL). Tnase and TPL are...; Region: Tnase_like; cd00617 634176000390 substrate binding site [chemical binding]; other site 634176000391 tetramer interface [polypeptide binding]; other site 634176000392 catalytic residue [active] 634176000393 elongation factor P; Validated; Region: PRK00529 634176000394 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 634176000395 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 634176000396 RNA binding site [nucleotide binding]; other site 634176000397 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 634176000398 RNA binding site [nucleotide binding]; other site 634176000399 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 634176000400 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 634176000401 FeS/SAM binding site; other site 634176000402 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 634176000403 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 634176000404 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 634176000405 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 634176000406 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 634176000407 putative substrate translocation pore; other site 634176000408 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 634176000409 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 634176000410 active site 634176000411 Int/Topo IB signature motif; other site 634176000412 trigger factor; Provisional; Region: tig; PRK01490 634176000413 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 634176000414 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 634176000415 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 634176000416 FtsH protease regulator HflC; Provisional; Region: PRK11029 634176000417 FtsH protease regulator HflK; Provisional; Region: PRK10930 634176000418 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 634176000419 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 634176000420 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 634176000421 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 634176000422 threonine synthase; Validated; Region: PRK09225 634176000423 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 634176000424 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634176000425 catalytic residue [active] 634176000426 homoserine kinase; Provisional; Region: PRK01212 634176000427 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 634176000428 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 634176000429 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 634176000430 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 634176000431 active site 634176000432 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 634176000433 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 634176000434 catalytic residue [active] 634176000435 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 634176000436 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 634176000437 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 634176000438 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 634176000439 dihydrodipicolinate synthase; Region: dapA; TIGR00674 634176000440 dimer interface [polypeptide binding]; other site 634176000441 active site 634176000442 catalytic residue [active] 634176000443 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 634176000444 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 634176000445 catalytic triad [active] 634176000446 Autotransporter beta-domain; Region: Autotransporter; pfam03797 634176000447 MAEBL; Provisional; Region: PTZ00121 634176000448 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 634176000449 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 634176000450 G1 box; other site 634176000451 putative GEF interaction site [polypeptide binding]; other site 634176000452 GTP/Mg2+ binding site [chemical binding]; other site 634176000453 Switch I region; other site 634176000454 G2 box; other site 634176000455 G3 box; other site 634176000456 Switch II region; other site 634176000457 G4 box; other site 634176000458 G5 box; other site 634176000459 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 634176000460 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 634176000461 glutamine synthetase; Provisional; Region: glnA; PRK09469 634176000462 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 634176000463 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 634176000464 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 634176000465 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 634176000466 putative DNA-binding cleft [nucleotide binding]; other site 634176000467 putative DNA clevage site; other site 634176000468 molecular lever; other site 634176000469 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 634176000470 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 634176000471 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 634176000472 DNA binding site [nucleotide binding] 634176000473 active site 634176000474 potential frameshift: common BLAST hit: gi|52424693|ref|YP_087830.1| FadL protein 634176000475 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 634176000476 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 634176000477 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3691 634176000478 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 634176000479 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 634176000480 transmembrane helices; other site 634176000481 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 634176000482 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 634176000483 UbiA prenyltransferase family; Region: UbiA; pfam01040 634176000484 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 634176000485 homodimer interaction site [polypeptide binding]; other site 634176000486 cofactor binding site; other site 634176000487 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 634176000488 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 634176000489 DNA binding residues [nucleotide binding] 634176000490 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 634176000491 metal-binding site [ion binding] 634176000492 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 634176000493 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 634176000494 metal-binding site [ion binding] 634176000495 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 634176000496 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 634176000497 Uncharacterized integral membrane protein [Function unknown]; Region: COG3739 634176000498 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 634176000499 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 634176000500 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 634176000501 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 634176000502 Walker A motif; other site 634176000503 ATP binding site [chemical binding]; other site 634176000504 Walker B motif; other site 634176000505 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 634176000506 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 634176000507 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 634176000508 oligomer interface [polypeptide binding]; other site 634176000509 active site residues [active] 634176000510 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 634176000511 Sulfatase; Region: Sulfatase; pfam00884 634176000512 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 634176000513 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 634176000514 ATP-grasp domain; Region: ATP-grasp_4; cl17255 634176000515 TadE-like protein; Region: TadE; pfam07811 634176000516 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 634176000517 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 634176000518 binding surface 634176000519 TPR motif; other site 634176000520 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 634176000521 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 634176000522 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 634176000523 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 634176000524 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 634176000525 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 634176000526 ATP binding site [chemical binding]; other site 634176000527 Walker A motif; other site 634176000528 hexamer interface [polypeptide binding]; other site 634176000529 Walker B motif; other site 634176000530 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 634176000531 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 634176000532 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 634176000533 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 634176000534 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 634176000535 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 634176000536 Flp/Fap pilin component; Region: Flp_Fap; cl01585 634176000537 Flp/Fap pilin component; Region: Flp_Fap; cl01585 634176000538 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 634176000539 PhoH-like protein; Region: PhoH; pfam02562 634176000540 metal-binding heat shock protein; Provisional; Region: PRK00016 634176000541 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 634176000542 Helicase; Region: Helicase_RecD; pfam05127 634176000543 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 634176000544 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 634176000545 transcription-repair coupling factor; Provisional; Region: PRK10689 634176000546 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 634176000547 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 634176000548 ATP binding site [chemical binding]; other site 634176000549 putative Mg++ binding site [ion binding]; other site 634176000550 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 634176000551 nucleotide binding region [chemical binding]; other site 634176000552 ATP-binding site [chemical binding]; other site 634176000553 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 634176000554 Uncharacterized conserved protein [Function unknown]; Region: COG3791 634176000555 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 634176000556 dimer interface [polypeptide binding]; other site 634176000557 active site 634176000558 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 634176000559 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634176000560 Walker A/P-loop; other site 634176000561 ATP binding site [chemical binding]; other site 634176000562 Q-loop/lid; other site 634176000563 ABC transporter signature motif; other site 634176000564 Walker B; other site 634176000565 D-loop; other site 634176000566 H-loop/switch region; other site 634176000567 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 634176000568 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 634176000569 substrate binding pocket [chemical binding]; other site 634176000570 membrane-bound complex binding site; other site 634176000571 hinge residues; other site 634176000572 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 634176000573 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 634176000574 dimer interface [polypeptide binding]; other site 634176000575 conserved gate region; other site 634176000576 putative PBP binding loops; other site 634176000577 ABC-ATPase subunit interface; other site 634176000578 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 634176000579 dimer interface [polypeptide binding]; other site 634176000580 conserved gate region; other site 634176000581 putative PBP binding loops; other site 634176000582 ABC-ATPase subunit interface; other site 634176000583 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 634176000584 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 634176000585 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 634176000586 substrate binding pocket [chemical binding]; other site 634176000587 membrane-bound complex binding site; other site 634176000588 hinge residues; other site 634176000589 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 634176000590 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 634176000591 Carbon starvation protein CstA; Region: CstA; pfam02554 634176000592 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 634176000593 cell division protein MraZ; Reviewed; Region: PRK00326 634176000594 MraZ protein; Region: MraZ; pfam02381 634176000595 MraZ protein; Region: MraZ; pfam02381 634176000596 16S rRNA (cytosine(1402)-N(4))-methyltransferase; Region: TIGR00006 634176000597 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 634176000598 Cell division protein [Cell division and chromosome partitioning]; Region: FtsL; COG3116 634176000599 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 634176000600 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 634176000601 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 634176000602 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 634176000603 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 634176000604 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 634176000605 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 634176000606 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 634176000607 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 634176000608 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 634176000609 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 634176000610 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 634176000611 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 634176000612 Mg++ binding site [ion binding]; other site 634176000613 putative catalytic motif [active] 634176000614 putative substrate binding site [chemical binding]; other site 634176000615 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 634176000616 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 634176000617 cell division protein FtsW; Region: ftsW; TIGR02614 634176000618 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 634176000619 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 634176000620 active site 634176000621 homodimer interface [polypeptide binding]; other site 634176000622 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 634176000623 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 634176000624 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 634176000625 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 634176000626 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 634176000627 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 634176000628 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 634176000629 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 634176000630 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 634176000631 Cell division protein FtsQ; Region: FtsQ; pfam03799 634176000632 cell division protein FtsA; Region: ftsA; TIGR01174 634176000633 Cell division protein FtsA; Region: FtsA; smart00842 634176000634 Cell division protein FtsA; Region: FtsA; pfam14450 634176000635 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 634176000636 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 634176000637 nucleotide binding site [chemical binding]; other site 634176000638 SulA interaction site; other site 634176000639 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 634176000640 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 634176000641 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 634176000642 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 634176000643 Prephenate dehydratase; Region: PDT; pfam00800 634176000644 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 634176000645 putative L-Phe binding site [chemical binding]; other site 634176000646 Protein of unknown function (DUF533); Region: DUF533; pfam04391 634176000647 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 634176000648 putative metal binding site [ion binding]; other site 634176000649 heat shock protein 90; Provisional; Region: PRK05218 634176000650 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 634176000651 ATP binding site [chemical binding]; other site 634176000652 Mg2+ binding site [ion binding]; other site 634176000653 G-X-G motif; other site 634176000654 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 634176000655 ArsC family; Region: ArsC; pfam03960 634176000656 putative catalytic residues [active] 634176000657 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 634176000658 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 634176000659 N-terminal plug; other site 634176000660 ligand-binding site [chemical binding]; other site 634176000661 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 634176000662 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 634176000663 metal binding site [ion binding]; metal-binding site 634176000664 dimer interface [polypeptide binding]; other site 634176000665 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 634176000666 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 634176000667 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 634176000668 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 634176000669 dimer interface [polypeptide binding]; other site 634176000670 ADP-ribose binding site [chemical binding]; other site 634176000671 active site 634176000672 nudix motif; other site 634176000673 metal binding site [ion binding]; metal-binding site 634176000674 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 634176000675 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 634176000676 active site 634176000677 metal binding site [ion binding]; metal-binding site 634176000678 hexamer interface [polypeptide binding]; other site 634176000679 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 634176000680 Ligand Binding Site [chemical binding]; other site 634176000681 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 634176000682 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 634176000683 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 634176000684 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 634176000685 putative RNA binding site [nucleotide binding]; other site 634176000686 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 634176000687 S-adenosylmethionine binding site [chemical binding]; other site 634176000688 putative protease; Provisional; Region: PRK15452 634176000689 Peptidase family U32; Region: Peptidase_U32; pfam01136 634176000690 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 634176000691 exonuclease, DNA polymerase III, epsilon subunit family; Region: dnaq; TIGR00573 634176000692 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 634176000693 active site 634176000694 catalytic site [active] 634176000695 substrate binding site [chemical binding]; other site 634176000696 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 634176000697 RNA/DNA hybrid binding site [nucleotide binding]; other site 634176000698 active site 634176000699 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 634176000700 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 634176000701 transmembrane helices; other site 634176000702 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; cl01498 634176000703 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 634176000704 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 634176000705 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 634176000706 citrate lyase subunit gamma; Provisional; Region: PRK13253 634176000707 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 634176000708 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 634176000709 putative active site [active] 634176000710 (T/H)XGH motif; other site 634176000711 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 634176000712 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 634176000713 Transporter associated domain; Region: CorC_HlyC; smart01091 634176000714 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 634176000715 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 634176000716 putative active site [active] 634176000717 catalytic triad [active] 634176000718 putative dimer interface [polypeptide binding]; other site 634176000719 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 634176000720 rRNA binding site [nucleotide binding]; other site 634176000721 predicted 30S ribosome binding site; other site 634176000722 aminopeptidase B; Provisional; Region: PRK05015 634176000723 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 634176000724 interface (dimer of trimers) [polypeptide binding]; other site 634176000725 Substrate-binding/catalytic site; other site 634176000726 Zn-binding sites [ion binding]; other site 634176000727 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 634176000728 active site 634176000729 multimer interface [polypeptide binding]; other site 634176000730 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 634176000731 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 634176000732 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 634176000733 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 634176000734 P loop; other site 634176000735 Nucleotide binding site [chemical binding]; other site 634176000736 DTAP/Switch II; other site 634176000737 Switch I; other site 634176000738 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 634176000739 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 634176000740 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 634176000741 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 634176000742 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 634176000743 RHS Repeat; Region: RHS_repeat; pfam05593 634176000744 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 634176000745 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 634176000746 RHS Repeat; Region: RHS_repeat; pfam05593 634176000747 RHS Repeat; Region: RHS_repeat; pfam05593 634176000748 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 634176000749 RHS Repeat; Region: RHS_repeat; cl11982 634176000750 RHS protein; Region: RHS; pfam03527 634176000751 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 634176000752 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 634176000753 RHS protein; Region: RHS; pfam03527 634176000754 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 634176000755 hypothetical protein; Provisional; Region: PRK10963 634176000756 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 634176000757 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 634176000758 GDP-binding site [chemical binding]; other site 634176000759 ACT binding site; other site 634176000760 IMP binding site; other site 634176000761 Methyltransferase domain; Region: Methyltransf_23; pfam13489 634176000762 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 634176000763 S-adenosylmethionine binding site [chemical binding]; other site 634176000764 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 634176000765 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 634176000766 Na binding site [ion binding]; other site 634176000767 ribonuclease G; Provisional; Region: PRK11712 634176000768 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 634176000769 homodimer interface [polypeptide binding]; other site 634176000770 oligonucleotide binding site [chemical binding]; other site 634176000771 glutaredoxin 2; Provisional; Region: PRK10387 634176000772 GST_N family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD, compared with other GRXs which are 9-12kD in size. GRX2 adopts a GST fold containing an N-terminal...; Region: GST_N_GRX2; cd03037 634176000773 C-terminal domain interface [polypeptide binding]; other site 634176000774 GSH binding site (G-site) [chemical binding]; other site 634176000775 catalytic residues [active] 634176000776 putative dimer interface [polypeptide binding]; other site 634176000777 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 634176000778 N-terminal domain interface [polypeptide binding]; other site 634176000779 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 634176000780 NAD-dependent deacetylase; Provisional; Region: PRK00481 634176000781 NAD+ binding site [chemical binding]; other site 634176000782 substrate binding site [chemical binding]; other site 634176000783 Zn binding site [ion binding]; other site 634176000784 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 634176000785 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 634176000786 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 634176000787 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 634176000788 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 634176000789 dimer interface [polypeptide binding]; other site 634176000790 conserved gate region; other site 634176000791 putative PBP binding loops; other site 634176000792 ABC-ATPase subunit interface; other site 634176000793 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 634176000794 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634176000795 Walker A/P-loop; other site 634176000796 ATP binding site [chemical binding]; other site 634176000797 Q-loop/lid; other site 634176000798 ABC transporter signature motif; other site 634176000799 Walker B; other site 634176000800 D-loop; other site 634176000801 H-loop/switch region; other site 634176000802 molybdenum transport protein ModD; Provisional; Region: PRK06096 634176000803 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 634176000804 dimerization interface [polypeptide binding]; other site 634176000805 active site 634176000806 protease TldD; Provisional; Region: tldD; PRK10735 634176000807 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like; cl17506 634176000808 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 634176000809 MG2 domain; Region: A2M_N; pfam01835 634176000810 Alpha-2-macroglobulin family; Region: A2M; pfam00207 634176000811 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 634176000812 surface patch; other site 634176000813 thioester region; other site 634176000814 specificity defining residues; other site 634176000815 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 634176000816 Transglycosylase; Region: Transgly; pfam00912 634176000817 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 634176000818 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 634176000819 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 634176000820 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 634176000821 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 634176000822 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 634176000823 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 634176000824 putative active site [active] 634176000825 catalytic site [active] 634176000826 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 634176000827 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 634176000828 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 634176000829 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 634176000830 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 634176000831 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 634176000832 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 634176000833 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 634176000834 multifunctional aminopeptidase A; Provisional; Region: PRK00913 634176000835 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 634176000836 interface (dimer of trimers) [polypeptide binding]; other site 634176000837 Substrate-binding/catalytic site; other site 634176000838 Zn-binding sites [ion binding]; other site 634176000839 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 634176000840 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 634176000841 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 634176000842 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 634176000843 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 634176000844 FAD binding site [chemical binding]; other site 634176000845 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 634176000846 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 634176000847 ABC-ATPase subunit interface; other site 634176000848 dimer interface [polypeptide binding]; other site 634176000849 putative PBP binding regions; other site 634176000850 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 634176000851 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 634176000852 putative peptidase; Provisional; Region: PRK11649 634176000853 Peptidase family M23; Region: Peptidase_M23; pfam01551 634176000854 YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting...; Region: YeaK; cd04336 634176000855 putative deacylase active site [active] 634176000856 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 634176000857 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 634176000858 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634176000859 active site 634176000860 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 634176000861 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 634176000862 active site 634176000863 NTP binding site [chemical binding]; other site 634176000864 metal binding triad [ion binding]; metal-binding site 634176000865 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 634176000866 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 634176000867 Zn2+ binding site [ion binding]; other site 634176000868 Mg2+ binding site [ion binding]; other site 634176000869 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 634176000870 Bacterial SH3 domain homologues; Region: SH3b; smart00287 634176000871 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 634176000872 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 634176000873 TIGR00153 family protein; Region: TIGR00153 634176000874 Uncharacterized conserved protein [Function unknown]; Region: COG3025 634176000875 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 634176000876 putative active site [active] 634176000877 putative metal binding residues [ion binding]; other site 634176000878 signature motif; other site 634176000879 putative triphosphate binding site [ion binding]; other site 634176000880 DNA repair protein RadA; Provisional; Region: PRK11823 634176000881 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 634176000882 Walker A motif; other site 634176000883 ATP binding site [chemical binding]; other site 634176000884 Walker B motif; other site 634176000885 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 634176000886 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 634176000887 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 634176000888 putative DNA binding site [nucleotide binding]; other site 634176000889 dimerization interface [polypeptide binding]; other site 634176000890 putative Zn2+ binding site [ion binding]; other site 634176000891 AsnC family; Region: AsnC_trans_reg; pfam01037 634176000892 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 634176000893 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 634176000894 recombination factor protein RarA; Reviewed; Region: PRK13342 634176000895 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 634176000896 Walker A motif; other site 634176000897 ATP binding site [chemical binding]; other site 634176000898 Walker B motif; other site 634176000899 arginine finger; other site 634176000900 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 634176000901 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 634176000902 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 634176000903 seryl-tRNA synthetase; Provisional; Region: PRK05431 634176000904 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 634176000905 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 634176000906 dimer interface [polypeptide binding]; other site 634176000907 active site 634176000908 motif 1; other site 634176000909 motif 2; other site 634176000910 motif 3; other site 634176000911 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 634176000912 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 634176000913 metal binding triad; other site 634176000914 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 634176000915 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 634176000916 metal binding triad; other site 634176000917 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 634176000918 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 634176000919 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 634176000920 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 634176000921 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 634176000922 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 634176000923 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 634176000924 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 634176000925 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 634176000926 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 634176000927 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 634176000928 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 634176000929 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 634176000930 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 634176000931 active site turn [active] 634176000932 phosphorylation site [posttranslational modification] 634176000933 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 634176000934 putative catalytic site [active] 634176000935 putative metal binding site [ion binding]; other site 634176000936 putative phosphate binding site [ion binding]; other site 634176000937 4-alpha-glucanotransferase; Provisional; Region: PRK14508 634176000938 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 634176000939 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 634176000940 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 634176000941 DNA-binding site [nucleotide binding]; DNA binding site 634176000942 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 634176000943 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 634176000944 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 634176000945 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 634176000946 THF binding site; other site 634176000947 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 634176000948 substrate binding site [chemical binding]; other site 634176000949 THF binding site; other site 634176000950 zinc-binding site [ion binding]; other site 634176000951 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 634176000952 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634176000953 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 634176000954 putative dimerization interface [polypeptide binding]; other site 634176000955 AzlC protein; Region: AzlC; cl00570 634176000956 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 634176000957 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 634176000958 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 634176000959 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 634176000960 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 634176000961 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 634176000962 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634176000963 Protein of unknown function (DUF535); Region: DUF535; pfam04393 634176000964 cytidylate kinase; Provisional; Region: cmk; PRK00023 634176000965 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 634176000966 CMP-binding site; other site 634176000967 The sites determining sugar specificity; other site 634176000968 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 634176000969 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 634176000970 RNA binding site [nucleotide binding]; other site 634176000971 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 634176000972 RNA binding site [nucleotide binding]; other site 634176000973 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 634176000974 RNA binding site [nucleotide binding]; other site 634176000975 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 634176000976 RNA binding site [nucleotide binding]; other site 634176000977 S1_RPS1_repeat_ec5: 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_ec5; cd05690 634176000978 RNA binding site [nucleotide binding]; other site 634176000979 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 634176000980 RNA binding site [nucleotide binding]; other site 634176000981 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 634176000982 IHF dimer interface [polypeptide binding]; other site 634176000983 IHF - DNA interface [nucleotide binding]; other site 634176000984 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 634176000985 tetratricopeptide repeat protein; Provisional; Region: PRK11788 634176000986 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 634176000987 binding surface 634176000988 TPR motif; other site 634176000989 translation initiation factor Sui1; Validated; Region: PRK06824 634176000990 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 634176000991 putative rRNA binding site [nucleotide binding]; other site 634176000992 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 634176000993 DNA gyrase subunit A; Validated; Region: PRK05560 634176000994 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 634176000995 CAP-like domain; other site 634176000996 active site 634176000997 primary dimer interface [polypeptide binding]; other site 634176000998 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 634176000999 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 634176001000 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 634176001001 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 634176001002 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 634176001003 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 634176001004 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 634176001005 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 634176001006 S-adenosylmethionine binding site [chemical binding]; other site 634176001007 ferric uptake regulator; Provisional; Region: fur; PRK09462 634176001008 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 634176001009 metal binding site 2 [ion binding]; metal-binding site 634176001010 putative DNA binding helix; other site 634176001011 metal binding site 1 [ion binding]; metal-binding site 634176001012 dimer interface [polypeptide binding]; other site 634176001013 structural Zn2+ binding site [ion binding]; other site 634176001014 flavodoxin FldA; Validated; Region: PRK09267 634176001015 LexA regulated protein; Provisional; Region: PRK11675 634176001016 acyl-CoA esterase; Provisional; Region: PRK10673 634176001017 PGAP1-like protein; Region: PGAP1; pfam07819 634176001018 replication initiation regulator SeqA; Provisional; Region: PRK11187 634176001019 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 634176001020 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 634176001021 acyl-activating enzyme (AAE) consensus motif; other site 634176001022 putative AMP binding site [chemical binding]; other site 634176001023 putative active site [active] 634176001024 putative CoA binding site [chemical binding]; other site 634176001025 hypothetical protein; Provisional; Region: PRK11281 634176001026 Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may...; Region: SynN; cl00143 634176001027 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 634176001028 Mechanosensitive ion channel; Region: MS_channel; pfam00924 634176001029 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 634176001030 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 634176001031 Tetramer interface [polypeptide binding]; other site 634176001032 active site 634176001033 FMN-binding site [chemical binding]; other site 634176001034 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 634176001035 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 634176001036 hypothetical protein; Provisional; Region: PRK10621 634176001037 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 634176001038 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 634176001039 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 634176001040 putative acyl-acceptor binding pocket; other site 634176001041 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634176001042 active site 634176001043 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 634176001044 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 634176001045 Walker A motif; other site 634176001046 ATP binding site [chemical binding]; other site 634176001047 Walker B motif; other site 634176001048 DNA polymerase III subunit delta'; Validated; Region: PRK08485 634176001049 arginine finger; other site 634176001050 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 634176001051 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 634176001052 hypothetical protein; Provisional; Region: PRK05421 634176001053 putative catalytic site [active] 634176001054 putative metal binding site [ion binding]; other site 634176001055 putative phosphate binding site [ion binding]; other site 634176001056 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 634176001057 homotrimer interaction site [polypeptide binding]; other site 634176001058 putative active site [active] 634176001059 YwiC-like protein; Region: YwiC; pfam14256 634176001060 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 634176001061 Sel1-like repeats; Region: SEL1; smart00671 634176001062 Sel1 repeat; Region: Sel1; cl02723 634176001063 Sel1 repeat; Region: Sel1; cl02723 634176001064 exoribonuclease II; Provisional; Region: PRK05054 634176001065 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 634176001066 RNB domain; Region: RNB; pfam00773 634176001067 S1 RNA binding domain; Region: S1; pfam00575 634176001068 RNA binding site [nucleotide binding]; other site 634176001069 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 634176001070 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 634176001071 NAD binding site [chemical binding]; other site 634176001072 homotetramer interface [polypeptide binding]; other site 634176001073 homodimer interface [polypeptide binding]; other site 634176001074 substrate binding site [chemical binding]; other site 634176001075 active site 634176001076 Uncharacterized conserved protein [Function unknown]; Region: COG0327 634176001077 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 634176001078 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 634176001079 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 634176001080 FeS/SAM binding site; other site 634176001081 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 634176001082 active site 634176001083 Predicted transcriptional regulator [Transcription]; Region: COG2378 634176001084 WYL domain; Region: WYL; pfam13280 634176001085 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 634176001086 HemK family putative methylases; Region: hemK_fam; TIGR00536 634176001087 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 634176001088 S-adenosylmethionine binding site [chemical binding]; other site 634176001089 hypothetical protein; Provisional; Region: PRK04946 634176001090 Smr domain; Region: Smr; pfam01713 634176001091 TIGR01666 family membrane protein; Region: YCCS 634176001092 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 634176001093 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 634176001094 Predicted membrane protein [Function unknown]; Region: COG3304 634176001095 Domain of unknown function (DUF307); Region: DUF307; pfam03733 634176001096 Domain of unknown function (DUF307); Region: DUF307; pfam03733 634176001097 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 634176001098 active site 634176001099 dimer interfaces [polypeptide binding]; other site 634176001100 catalytic residues [active] 634176001101 hypothetical protein; Provisional; Region: PRK01904 634176001102 acylphosphatase; Provisional; Region: PRK14448 634176001103 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 634176001104 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 634176001105 ABC-ATPase subunit interface; other site 634176001106 dimer interface [polypeptide binding]; other site 634176001107 putative PBP binding regions; other site 634176001108 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 634176001109 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 634176001110 ABC-ATPase subunit interface; other site 634176001111 dimer interface [polypeptide binding]; other site 634176001112 putative PBP binding regions; other site 634176001113 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 634176001114 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 634176001115 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 634176001116 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 634176001117 metal binding site [ion binding]; metal-binding site 634176001118 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 634176001119 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 634176001120 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 634176001121 YccA-like proteins; Region: YccA_like; cd10433 634176001122 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 634176001123 Protein of unknown function (DUF1043); Region: DUF1043; pfam06295 634176001124 Protein of unknown function (DUF1375); Region: DUF1375; pfam07119 634176001125 uncharacterized domain; Region: TIGR00702 634176001126 YcaO-like family; Region: YcaO; pfam02624 634176001127 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 634176001128 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 634176001129 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 634176001130 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 634176001131 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 634176001132 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 634176001133 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 634176001134 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 634176001135 active site turn [active] 634176001136 phosphorylation site [posttranslational modification] 634176001137 Methyltransferase domain; Region: Methyltransf_11; pfam08241 634176001138 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 634176001139 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 634176001140 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 634176001141 tRNA; other site 634176001142 putative tRNA binding site [nucleotide binding]; other site 634176001143 putative NADP binding site [chemical binding]; other site 634176001144 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 634176001145 MarR family; Region: MarR_2; cl17246 634176001146 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 634176001147 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 634176001148 nucleotide binding site [chemical binding]; other site 634176001149 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 634176001150 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 634176001151 argininosuccinate synthase; Validated; Region: PRK05370 634176001152 argininosuccinate synthase; Provisional; Region: PRK13820 634176001153 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 634176001154 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 634176001155 putative NAD(P) binding site [chemical binding]; other site 634176001156 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 634176001157 ATP binding site [chemical binding]; other site 634176001158 active site 634176001159 substrate binding site [chemical binding]; other site 634176001160 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 634176001161 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 634176001162 eyelet of channel; other site 634176001163 trimer interface [polypeptide binding]; other site 634176001164 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 634176001165 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 634176001166 G1 box; other site 634176001167 putative GEF interaction site [polypeptide binding]; other site 634176001168 GTP/Mg2+ binding site [chemical binding]; other site 634176001169 Switch I region; other site 634176001170 G2 box; other site 634176001171 G3 box; other site 634176001172 Switch II region; other site 634176001173 G4 box; other site 634176001174 G5 box; other site 634176001175 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 634176001176 cytidine deaminase; Provisional; Region: PRK09027 634176001177 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 634176001178 active site 634176001179 catalytic motif [active] 634176001180 Zn binding site [ion binding]; other site 634176001181 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 634176001182 active site 634176001183 catalytic motif [active] 634176001184 Zn binding site [ion binding]; other site 634176001185 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 634176001186 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 634176001187 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 634176001188 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 634176001189 dimer interface [polypeptide binding]; other site 634176001190 conserved gate region; other site 634176001191 ABC-ATPase subunit interface; other site 634176001192 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 634176001193 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 634176001194 dimer interface [polypeptide binding]; other site 634176001195 conserved gate region; other site 634176001196 putative PBP binding loops; other site 634176001197 ABC-ATPase subunit interface; other site 634176001198 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 634176001199 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 634176001200 Walker A/P-loop; other site 634176001201 ATP binding site [chemical binding]; other site 634176001202 Q-loop/lid; other site 634176001203 ABC transporter signature motif; other site 634176001204 Walker B; other site 634176001205 D-loop; other site 634176001206 H-loop/switch region; other site 634176001207 TOBE domain; Region: TOBE_2; pfam08402 634176001208 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 634176001209 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 634176001210 metal binding site [ion binding]; metal-binding site 634176001211 dimer interface [polypeptide binding]; other site 634176001212 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 634176001213 mce related protein; Region: MCE; pfam02470 634176001214 mce related protein; Region: MCE; pfam02470 634176001215 mce related protein; Region: MCE; pfam02470 634176001216 mce related protein; Region: MCE; pfam02470 634176001217 mce related protein; Region: MCE; pfam02470 634176001218 potential protein location (hypothetical protein) that overlaps protein (PqiA protein) 634176001219 ProP expression regulator; Provisional; Region: PRK04950 634176001220 ProQ/FINO family; Region: ProQ; smart00945 634176001221 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 634176001222 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 634176001223 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 634176001224 Peptidase M15; Region: Peptidase_M15_3; cl01194 634176001225 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 634176001226 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 634176001227 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 634176001228 TPP-binding site [chemical binding]; other site 634176001229 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 634176001230 dimer interface [polypeptide binding]; other site 634176001231 PYR/PP interface [polypeptide binding]; other site 634176001232 TPP binding site [chemical binding]; other site 634176001233 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 634176001234 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 634176001235 E3 interaction surface; other site 634176001236 lipoyl attachment site [posttranslational modification]; other site 634176001237 e3 binding domain; Region: E3_binding; pfam02817 634176001238 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 634176001239 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 634176001240 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 634176001241 CoA-ligase; Region: Ligase_CoA; pfam00549 634176001242 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 634176001243 CoA binding domain; Region: CoA_binding; pfam02629 634176001244 CoA-ligase; Region: Ligase_CoA; pfam00549 634176001245 potential protein location (cell wall-associated hydrolase [Aggregatibacter aphrophilus NJ8700]) that overlaps RNA (23S ribosomal RNA) 634176001246 TfoX N-terminal domain; Region: TfoX_N; pfam04993 634176001247 TfoX C-terminal domain; Region: TfoX_C; pfam04994 634176001248 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 634176001249 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 634176001250 Periplasmic protein with OB-fold [Function unknown]; Region: COG3111 634176001251 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 634176001252 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 634176001253 active site 634176001254 phosphorylation site [posttranslational modification] 634176001255 intermolecular recognition site; other site 634176001256 dimerization interface [polypeptide binding]; other site 634176001257 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 634176001258 DNA binding site [nucleotide binding] 634176001259 sensor protein QseC; Provisional; Region: PRK10337 634176001260 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 634176001261 dimer interface [polypeptide binding]; other site 634176001262 phosphorylation site [posttranslational modification] 634176001263 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 634176001264 ATP binding site [chemical binding]; other site 634176001265 Mg2+ binding site [ion binding]; other site 634176001266 G-X-G motif; other site 634176001267 adenylate kinase; Reviewed; Region: adk; PRK00279 634176001268 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 634176001269 AMP-binding site [chemical binding]; other site 634176001270 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 634176001271 muropeptide transporter; Reviewed; Region: ampG; PRK11902 634176001272 AmpG-like permease; Region: 2A0125; TIGR00901 634176001273 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 634176001274 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 634176001275 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 634176001276 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 634176001277 NAD binding site [chemical binding]; other site 634176001278 homodimer interface [polypeptide binding]; other site 634176001279 active site 634176001280 substrate binding site [chemical binding]; other site 634176001281 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 634176001282 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 634176001283 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 634176001284 Ligand Binding Site [chemical binding]; other site 634176001285 TilS substrate binding domain; Region: TilS; pfam09179 634176001286 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 634176001287 pyridoxamine kinase; Validated; Region: PRK05756 634176001288 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 634176001289 dimer interface [polypeptide binding]; other site 634176001290 pyridoxal binding site [chemical binding]; other site 634176001291 ATP binding site [chemical binding]; other site 634176001292 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 634176001293 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 634176001294 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 634176001295 SPFH domain / Band 7 family; Region: Band_7; pfam01145 634176001296 Uncharacterized conserved protein (DUF2303); Region: DUF2303; cl02338 634176001297 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 634176001298 RecT family; Region: RecT; cl04285 634176001299 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 634176001300 HicB family; Region: HicB; pfam05534 634176001301 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 634176001302 non-specific DNA binding site [nucleotide binding]; other site 634176001303 Predicted transcriptional regulator [Transcription]; Region: COG2932 634176001304 salt bridge; other site 634176001305 sequence-specific DNA binding site [nucleotide binding]; other site 634176001306 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 634176001307 Catalytic site [active] 634176001308 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 634176001309 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 634176001310 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 634176001311 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 634176001312 Helix-turn-helix domain; Region: HTH_36; pfam13730 634176001313 Replication protein P; Region: Phage_lambda_P; pfam06992 634176001314 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 634176001315 Protein of unknown function (DUF1367); Region: DUF1367; pfam07105 634176001316 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 634176001317 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 634176001318 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 634176001319 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 634176001320 catalytic residues [active] 634176001321 Protein of unknown function (DUF2570); Region: DUF2570; pfam10828 634176001322 Phage Terminase; Region: Terminase_1; pfam03354 634176001323 Phage-related protein [Function unknown]; Region: COG4695 634176001324 Phage portal protein; Region: Phage_portal; pfam04860 634176001325 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 634176001326 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 634176001327 Phage capsid family; Region: Phage_capsid; pfam05065 634176001328 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 634176001329 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 634176001330 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 634176001331 Protein of unknown function (DUF4035); Region: DUF4035; pfam13227 634176001332 tape measure domain; Region: tape_meas_nterm; TIGR02675 634176001333 Phage minor tail protein; Region: Phage_min_tail; cl01940 634176001334 Phage-related protein [Function unknown]; Region: gp18; COG4672 634176001335 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 634176001336 MPN+ (JAMM) motif; other site 634176001337 Zinc-binding site [ion binding]; other site 634176001338 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 634176001339 NlpC/P60 family; Region: NLPC_P60; cl17555 634176001340 Phage-related protein, tail component [Function unknown]; Region: COG4723 634176001341 integrase; Provisional; Region: PRK09692 634176001342 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 634176001343 active site 634176001344 Int/Topo IB signature motif; other site 634176001345 GMP synthase; Reviewed; Region: guaA; PRK00074 634176001346 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 634176001347 AMP/PPi binding site [chemical binding]; other site 634176001348 candidate oxyanion hole; other site 634176001349 catalytic triad [active] 634176001350 potential glutamine specificity residues [chemical binding]; other site 634176001351 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 634176001352 ATP Binding subdomain [chemical binding]; other site 634176001353 Ligand Binding sites [chemical binding]; other site 634176001354 Dimerization subdomain; other site 634176001355 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 634176001356 EamA-like transporter family; Region: EamA; cl17759 634176001357 C4-dicarboxylate transporter DcuC; Provisional; Region: dcuC; PRK10654 634176001358 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 634176001359 xanthine permease; Region: pbuX; TIGR03173 634176001360 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 634176001361 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 634176001362 trimer interface [polypeptide binding]; other site 634176001363 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 634176001364 trimer interface [polypeptide binding]; other site 634176001365 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 634176001366 trimer interface [polypeptide binding]; other site 634176001367 YadA-like C-terminal region; Region: YadA; pfam03895 634176001368 potential protein location (hypothetical protein) that overlaps protein (hemagglutinin family protein) 634176001369 potential protein location (hypothetical protein) that overlaps protein (hypothetical protein) 634176001370 potential protein location (hypothetical protein) that overlaps protein (hypothetical protein) 634176001371 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 634176001372 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 634176001373 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 634176001374 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 634176001375 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 634176001376 active site 634176001377 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 634176001378 HTH domain; Region: HTH_11; cl17392 634176001379 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 634176001380 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 634176001381 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 634176001382 dimer interface [polypeptide binding]; other site 634176001383 substrate binding site [chemical binding]; other site 634176001384 ATP binding site [chemical binding]; other site 634176001385 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 634176001386 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 634176001387 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 634176001388 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 634176001389 dimer interface [polypeptide binding]; other site 634176001390 conserved gate region; other site 634176001391 putative PBP binding loops; other site 634176001392 ABC-ATPase subunit interface; other site 634176001393 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 634176001394 dimer interface [polypeptide binding]; other site 634176001395 conserved gate region; other site 634176001396 putative PBP binding loops; other site 634176001397 ABC-ATPase subunit interface; other site 634176001398 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 634176001399 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634176001400 Walker A/P-loop; other site 634176001401 ATP binding site [chemical binding]; other site 634176001402 Q-loop/lid; other site 634176001403 ABC transporter signature motif; other site 634176001404 Walker B; other site 634176001405 D-loop; other site 634176001406 H-loop/switch region; other site 634176001407 biotin synthase; Region: bioB; TIGR00433 634176001408 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 634176001409 FeS/SAM binding site; other site 634176001410 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 634176001411 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 634176001412 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 634176001413 DNA methylase; Region: N6_N4_Mtase; pfam01555 634176001414 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 634176001415 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 634176001416 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 634176001417 active site turn [active] 634176001418 phosphorylation site [posttranslational modification] 634176001419 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 634176001420 Kelch motif; Region: Kelch_1; pfam01344 634176001421 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 634176001422 DctM-like transporters; Region: DctM; pfam06808 634176001423 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 634176001424 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 634176001425 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 634176001426 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 634176001427 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 634176001428 putative active site cavity [active] 634176001429 N-acetylmannosamine kinase; Provisional; Region: PRK05082 634176001430 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 634176001431 nucleotide binding site [chemical binding]; other site 634176001432 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 634176001433 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 634176001434 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 634176001435 putative active site [active] 634176001436 N-acetylneuraminate lyase; Provisional; Region: PRK04147 634176001437 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 634176001438 inhibitor site; inhibition site 634176001439 active site 634176001440 dimer interface [polypeptide binding]; other site 634176001441 catalytic residue [active] 634176001442 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 634176001443 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 634176001444 active site 634176001445 trimer interface [polypeptide binding]; other site 634176001446 allosteric site; other site 634176001447 active site lid [active] 634176001448 hexamer (dimer of trimers) interface [polypeptide binding]; other site 634176001449 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 634176001450 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 634176001451 active site 634176001452 dimer interface [polypeptide binding]; other site 634176001453 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 634176001454 dimer interface [polypeptide binding]; other site 634176001455 catalytic triad [active] 634176001456 peroxidatic and resolving cysteines [active] 634176001457 ferrochelatase; Reviewed; Region: hemH; PRK00035 634176001458 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 634176001459 C-terminal domain interface [polypeptide binding]; other site 634176001460 active site 634176001461 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 634176001462 active site 634176001463 N-terminal domain interface [polypeptide binding]; other site 634176001464 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 634176001465 CoenzymeA binding site [chemical binding]; other site 634176001466 subunit interaction site [polypeptide binding]; other site 634176001467 PHB binding site; other site 634176001468 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 634176001469 FAD binding domain; Region: FAD_binding_4; pfam01565 634176001470 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 634176001471 outer membrane protein A; Reviewed; Region: PRK10808 634176001472 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 634176001473 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 634176001474 ligand binding site [chemical binding]; other site 634176001475 LemA family; Region: LemA; pfam04011 634176001476 Repair protein; Region: Repair_PSII; cl01535 634176001477 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 634176001478 Repair protein; Region: Repair_PSII; pfam04536 634176001479 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 634176001480 putative GSH binding site [chemical binding]; other site 634176001481 catalytic residues [active] 634176001482 Predicted membrane protein [Function unknown]; Region: COG2707 634176001483 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 634176001484 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 634176001485 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 634176001486 ATP binding site [chemical binding]; other site 634176001487 putative Mg++ binding site [ion binding]; other site 634176001488 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 634176001489 nucleotide binding region [chemical binding]; other site 634176001490 ATP-binding site [chemical binding]; other site 634176001491 Helicase associated domain (HA2); Region: HA2; pfam04408 634176001492 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 634176001493 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 634176001494 Cytochrome c; Region: Cytochrom_C; cl11414 634176001495 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 634176001496 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 634176001497 catalytic residues [active] 634176001498 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 634176001499 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 634176001500 Walker A/P-loop; other site 634176001501 ATP binding site [chemical binding]; other site 634176001502 Q-loop/lid; other site 634176001503 ABC transporter signature motif; other site 634176001504 Walker B; other site 634176001505 D-loop; other site 634176001506 H-loop/switch region; other site 634176001507 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 634176001508 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 634176001509 FtsX-like permease family; Region: FtsX; pfam02687 634176001510 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 634176001511 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 634176001512 FtsX-like permease family; Region: FtsX; pfam02687 634176001513 Predicted membrane protein [Function unknown]; Region: COG4393 634176001514 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 634176001515 Uncharacterized conserved protein [Function unknown]; Region: COG3350 634176001516 Uncharacterized protein probably involved in high-affinity Fe2+ transport [Inorganic ion transport and metabolism]; Region: Tpd; COG3470 634176001517 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 634176001518 Uncharacterized conserved protein [Function unknown]; Region: COG1556 634176001519 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 634176001520 Cysteine-rich domain; Region: CCG; pfam02754 634176001521 Cysteine-rich domain; Region: CCG; pfam02754 634176001522 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 634176001523 L-lactate permease; Region: Lactate_perm; cl00701 634176001524 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 634176001525 Transglycosylase; Region: Transgly; pfam00912 634176001526 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 634176001527 hypothetical protein; Provisional; Region: PRK05248 634176001528 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 634176001529 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 634176001530 active site 634176001531 PII uridylyl-transferase; Provisional; Region: glnD; PRK01759 634176001532 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 634176001533 metal binding triad; other site 634176001534 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 634176001535 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 634176001536 Zn2+ binding site [ion binding]; other site 634176001537 Mg2+ binding site [ion binding]; other site 634176001538 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 634176001539 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 634176001540 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 634176001541 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 634176001542 inhibitor-cofactor binding pocket; inhibition site 634176001543 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634176001544 catalytic residue [active] 634176001545 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 634176001546 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 634176001547 Mg++ binding site [ion binding]; other site 634176001548 putative catalytic motif [active] 634176001549 substrate binding site [chemical binding]; other site 634176001550 potential protein location (cell wall-associated hydrolase [Aggregatibacter aphrophilus NJ8700]) that overlaps RNA (23S ribosomal RNA) 634176001551 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3787; cl17897 634176001552 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 634176001553 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 634176001554 Walker A/P-loop; other site 634176001555 ATP binding site [chemical binding]; other site 634176001556 Q-loop/lid; other site 634176001557 ABC transporter signature motif; other site 634176001558 Walker B; other site 634176001559 D-loop; other site 634176001560 H-loop/switch region; other site 634176001561 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 634176001562 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 634176001563 Walker A/P-loop; other site 634176001564 ATP binding site [chemical binding]; other site 634176001565 Q-loop/lid; other site 634176001566 ABC transporter signature motif; other site 634176001567 Walker B; other site 634176001568 D-loop; other site 634176001569 H-loop/switch region; other site 634176001570 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 634176001571 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 634176001572 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 634176001573 dimer interface [polypeptide binding]; other site 634176001574 conserved gate region; other site 634176001575 putative PBP binding loops; other site 634176001576 ABC-ATPase subunit interface; other site 634176001577 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapB; COG4168 634176001578 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 634176001579 dimer interface [polypeptide binding]; other site 634176001580 conserved gate region; other site 634176001581 putative PBP binding loops; other site 634176001582 ABC-ATPase subunit interface; other site 634176001583 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 634176001584 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 634176001585 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634176001586 Q-loop/lid; other site 634176001587 ABC transporter signature motif; other site 634176001588 Walker B; other site 634176001589 D-loop; other site 634176001590 H-loop/switch region; other site 634176001591 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 634176001592 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 634176001593 Predicted ATPase [General function prediction only]; Region: COG3106 634176001594 hypothetical protein; Provisional; Region: PRK05415 634176001595 Domain of unknown function (DUF697); Region: DUF697; cl12064 634176001596 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 634176001597 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 634176001598 Walker A motif; other site 634176001599 ATP binding site [chemical binding]; other site 634176001600 Walker B motif; other site 634176001601 arginine finger; other site 634176001602 GTPase HflX; Provisional; Region: PRK11058 634176001603 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 634176001604 HflX GTPase family; Region: HflX; cd01878 634176001605 G1 box; other site 634176001606 GTP/Mg2+ binding site [chemical binding]; other site 634176001607 Switch I region; other site 634176001608 G2 box; other site 634176001609 G3 box; other site 634176001610 Switch II region; other site 634176001611 G4 box; other site 634176001612 G5 box; other site 634176001613 bacterial Hfq-like; Region: Hfq; cd01716 634176001614 hexamer interface [polypeptide binding]; other site 634176001615 Sm1 motif; other site 634176001616 RNA binding site [nucleotide binding]; other site 634176001617 Sm2 motif; other site 634176001618 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 634176001619 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 634176001620 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 634176001621 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 634176001622 Mg2+ binding site [ion binding]; other site 634176001623 G-X-G motif; other site 634176001624 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 634176001625 ATP binding site [chemical binding]; other site 634176001626 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 634176001627 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 634176001628 active site 634176001629 metal binding site [ion binding]; metal-binding site 634176001630 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 634176001631 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 634176001632 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 634176001633 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 634176001634 Sulfatase; Region: Sulfatase; cl17466 634176001635 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 634176001636 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 634176001637 catalytic site [active] 634176001638 putative active site [active] 634176001639 putative substrate binding site [chemical binding]; other site 634176001640 dimer interface [polypeptide binding]; other site 634176001641 GTPase RsgA; Reviewed; Region: PRK12288 634176001642 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 634176001643 RNA binding site [nucleotide binding]; other site 634176001644 homodimer interface [polypeptide binding]; other site 634176001645 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 634176001646 GTPase/Zn-binding domain interface [polypeptide binding]; other site 634176001647 GTP/Mg2+ binding site [chemical binding]; other site 634176001648 G4 box; other site 634176001649 G5 box; other site 634176001650 G1 box; other site 634176001651 Switch I region; other site 634176001652 G2 box; other site 634176001653 G3 box; other site 634176001654 Switch II region; other site 634176001655 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 634176001656 dimerization domain swap beta strand [polypeptide binding]; other site 634176001657 regulatory protein interface [polypeptide binding]; other site 634176001658 active site 634176001659 regulatory phosphorylation site [posttranslational modification]; other site 634176001660 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 634176001661 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 634176001662 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 634176001663 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 634176001664 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 634176001665 HPr interaction site; other site 634176001666 glycerol kinase (GK) interaction site [polypeptide binding]; other site 634176001667 active site 634176001668 phosphorylation site [posttranslational modification] 634176001669 oligopeptidase A; Provisional; Region: PRK10911 634176001670 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 634176001671 active site 634176001672 Zn binding site [ion binding]; other site 634176001673 Protein of unknown function (DUF454); Region: DUF454; cl01063 634176001674 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 634176001675 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 634176001676 peptide binding site [polypeptide binding]; other site 634176001677 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 634176001678 dimerization interface [polypeptide binding]; other site 634176001679 active site 634176001680 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 634176001681 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 634176001682 active site 634176001683 fructokinase; Reviewed; Region: PRK09557 634176001684 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 634176001685 nucleotide binding site [chemical binding]; other site 634176001686 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 634176001687 GT2_AmsE_like is involved in exopolysaccharide amylovora biosynthesis; Region: GT2_AmsE_like; cd04195 634176001688 lytic murein transglycosylase; Region: MltB_2; TIGR02283 634176001689 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 634176001690 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634176001691 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 634176001692 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 634176001693 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 634176001694 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 634176001695 Walker A/P-loop; other site 634176001696 ATP binding site [chemical binding]; other site 634176001697 Q-loop/lid; other site 634176001698 ABC transporter signature motif; other site 634176001699 Walker B; other site 634176001700 D-loop; other site 634176001701 H-loop/switch region; other site 634176001702 Predicted membrane protein [Function unknown]; Region: COG2246 634176001703 GtrA-like protein; Region: GtrA; pfam04138 634176001704 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 634176001705 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 634176001706 active site 634176001707 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 634176001708 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 634176001709 UDP-galactopyranose mutase; Region: GLF; pfam03275 634176001710 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 634176001711 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_b; cd04185 634176001712 Probable Catalytic site; other site 634176001713 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 634176001714 undecaprenyl-phosphate galactose phosphotransferase; Provisional; Region: PRK15204 634176001715 Bacterial sugar transferase; Region: Bac_transf; pfam02397 634176001716 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 634176001717 putative catalytic site [active] 634176001718 putative phosphate binding site [ion binding]; other site 634176001719 active site 634176001720 metal binding site A [ion binding]; metal-binding site 634176001721 DNA binding site [nucleotide binding] 634176001722 putative AP binding site [nucleotide binding]; other site 634176001723 putative metal binding site B [ion binding]; other site 634176001724 Family of unknown function (DUF695); Region: DUF695; pfam05117 634176001725 TIGR01619 family protein; Region: hyp_HI0040 634176001726 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 634176001727 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 634176001728 NAD binding site [chemical binding]; other site 634176001729 substrate binding site [chemical binding]; other site 634176001730 homodimer interface [polypeptide binding]; other site 634176001731 active site 634176001732 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 634176001733 putative FMN binding site [chemical binding]; other site 634176001734 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 634176001735 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 634176001736 tandem repeat interface [polypeptide binding]; other site 634176001737 oligomer interface [polypeptide binding]; other site 634176001738 active site residues [active] 634176001739 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 634176001740 tandem repeat interface [polypeptide binding]; other site 634176001741 oligomer interface [polypeptide binding]; other site 634176001742 active site residues [active] 634176001743 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 634176001744 chorismate mutase domain of T-protein; Region: CM_T; TIGR01799 634176001745 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634176001746 prephenate dehydrogenase; Validated; Region: PRK08507 634176001747 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 634176001748 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 634176001749 pseudouridine synthase; Region: TIGR00093 634176001750 probable active site [active] 634176001751 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 634176001752 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634176001753 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 634176001754 substrate binding site [chemical binding]; other site 634176001755 dimerization interface [polypeptide binding]; other site 634176001756 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 634176001757 active site 634176001758 homotetramer interface [polypeptide binding]; other site 634176001759 tellurite resistance protein TehB; Provisional; Region: PRK12335 634176001760 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 634176001761 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 634176001762 S-adenosylmethionine binding site [chemical binding]; other site 634176001763 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 634176001764 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 634176001765 dimer interface [polypeptide binding]; other site 634176001766 TPP-binding site [chemical binding]; other site 634176001767 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 634176001768 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 634176001769 E3 interaction surface; other site 634176001770 lipoyl attachment site [posttranslational modification]; other site 634176001771 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 634176001772 E3 interaction surface; other site 634176001773 lipoyl attachment site [posttranslational modification]; other site 634176001774 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 634176001775 E3 interaction surface; other site 634176001776 lipoyl attachment site [posttranslational modification]; other site 634176001777 e3 binding domain; Region: E3_binding; pfam02817 634176001778 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 634176001779 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 634176001780 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634176001781 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634176001782 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 634176001783 hypothetical protein; Provisional; Region: PRK07101 634176001784 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 634176001785 substrate-cofactor binding pocket; other site 634176001786 para-aminobenzoate synthase component I; Validated; Region: PRK07093 634176001787 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 634176001788 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 634176001789 Glutamine amidotransferase class-I; Region: GATase; pfam00117 634176001790 glutamine binding [chemical binding]; other site 634176001791 catalytic triad [active] 634176001792 glycerate dehydrogenase; Provisional; Region: PRK06932 634176001793 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 634176001794 putative ligand binding site [chemical binding]; other site 634176001795 putative NAD binding site [chemical binding]; other site 634176001796 catalytic site [active] 634176001797 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 634176001798 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 634176001799 N-terminal plug; other site 634176001800 ligand-binding site [chemical binding]; other site 634176001801 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 634176001802 intersubunit interface [polypeptide binding]; other site 634176001803 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 634176001804 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 634176001805 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 634176001806 dimer interface [polypeptide binding]; other site 634176001807 putative PBP binding regions; other site 634176001808 ABC-ATPase subunit interface; other site 634176001809 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 634176001810 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 634176001811 Walker A/P-loop; other site 634176001812 ATP binding site [chemical binding]; other site 634176001813 Q-loop/lid; other site 634176001814 ABC transporter signature motif; other site 634176001815 Walker B; other site 634176001816 D-loop; other site 634176001817 H-loop/switch region; other site 634176001818 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 634176001819 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 634176001820 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 634176001821 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 634176001822 substrate binding pocket [chemical binding]; other site 634176001823 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 634176001824 B12 binding site [chemical binding]; other site 634176001825 cobalt ligand [ion binding]; other site 634176001826 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 634176001827 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 634176001828 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 634176001829 FtsX-like permease family; Region: FtsX; pfam02687 634176001830 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 634176001831 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 634176001832 Walker A/P-loop; other site 634176001833 ATP binding site [chemical binding]; other site 634176001834 Q-loop/lid; other site 634176001835 ABC transporter signature motif; other site 634176001836 Walker B; other site 634176001837 D-loop; other site 634176001838 H-loop/switch region; other site 634176001839 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 634176001840 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 634176001841 FtsX-like permease family; Region: FtsX; pfam02687 634176001842 replicative DNA helicase; Validated; Region: PRK06904 634176001843 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 634176001844 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 634176001845 Walker A motif; other site 634176001846 ATP binding site [chemical binding]; other site 634176001847 Walker B motif; other site 634176001848 DNA binding loops [nucleotide binding] 634176001849 alanine racemase; Reviewed; Region: alr; PRK00053 634176001850 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 634176001851 active site 634176001852 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 634176001853 substrate binding site [chemical binding]; other site 634176001854 catalytic residues [active] 634176001855 dimer interface [polypeptide binding]; other site 634176001856 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 634176001857 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 634176001858 active site 634176001859 dimer interface [polypeptide binding]; other site 634176001860 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 634176001861 dimer interface [polypeptide binding]; other site 634176001862 active site 634176001863 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 634176001864 homopentamer interface [polypeptide binding]; other site 634176001865 active site 634176001866 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 634176001867 putative RNA binding site [nucleotide binding]; other site 634176001868 thiamine monophosphate kinase; Provisional; Region: PRK05731 634176001869 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 634176001870 ATP binding site [chemical binding]; other site 634176001871 dimerization interface [polypeptide binding]; other site 634176001872 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 634176001873 tetramer interfaces [polypeptide binding]; other site 634176001874 binuclear metal-binding site [ion binding]; other site 634176001875 LysE type translocator; Region: LysE; cl00565 634176001876 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 634176001877 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 634176001878 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 634176001879 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 634176001880 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 634176001881 catalytic loop [active] 634176001882 iron binding site [ion binding]; other site 634176001883 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 634176001884 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 634176001885 transmembrane helices; other site 634176001886 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 634176001887 dimer interface [polypeptide binding]; other site 634176001888 putative radical transfer pathway; other site 634176001889 diiron center [ion binding]; other site 634176001890 tyrosyl radical; other site 634176001891 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 634176001892 ATP cone domain; Region: ATP-cone; pfam03477 634176001893 Class I ribonucleotide reductase; Region: RNR_I; cd01679 634176001894 active site 634176001895 dimer interface [polypeptide binding]; other site 634176001896 catalytic residues [active] 634176001897 effector binding site; other site 634176001898 R2 peptide binding site; other site 634176001899 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 634176001900 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 634176001901 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 634176001902 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 634176001903 dimer interface [polypeptide binding]; other site 634176001904 conserved gate region; other site 634176001905 putative PBP binding loops; other site 634176001906 ABC-ATPase subunit interface; other site 634176001907 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 634176001908 dimer interface [polypeptide binding]; other site 634176001909 conserved gate region; other site 634176001910 putative PBP binding loops; other site 634176001911 ABC-ATPase subunit interface; other site 634176001912 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634176001913 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 634176001914 Walker A/P-loop; other site 634176001915 ATP binding site [chemical binding]; other site 634176001916 Q-loop/lid; other site 634176001917 ABC transporter signature motif; other site 634176001918 Walker B; other site 634176001919 D-loop; other site 634176001920 H-loop/switch region; other site 634176001921 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cl00022 634176001922 putative deacylase active site [active] 634176001923 Domain of unknown function (DUF1919); Region: DUF1919; pfam08942 634176001924 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 634176001925 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 634176001926 catalytic residues [active] 634176001927 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 634176001928 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 634176001929 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 634176001930 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 634176001931 SelR domain; Region: SelR; pfam01641 634176001932 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 634176001933 active site clefts [active] 634176001934 zinc binding site [ion binding]; other site 634176001935 dimer interface [polypeptide binding]; other site 634176001936 outer membrane lipoprotein; Provisional; Region: PRK11023 634176001937 BON domain; Region: BON; pfam04972 634176001938 BON domain; Region: BON; pfam04972 634176001939 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 634176001940 dimer interface [polypeptide binding]; other site 634176001941 active site 634176001942 hypothetical protein; Reviewed; Region: PRK12497 634176001943 LppC putative lipoprotein; Region: LppC; pfam04348 634176001944 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 634176001945 putative ligand binding site [chemical binding]; other site 634176001946 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 634176001947 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 634176001948 putative SAM binding site [chemical binding]; other site 634176001949 putative homodimer interface [polypeptide binding]; other site 634176001950 glycerol kinase; Provisional; Region: glpK; PRK00047 634176001951 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 634176001952 N- and C-terminal domain interface [polypeptide binding]; other site 634176001953 active site 634176001954 MgATP binding site [chemical binding]; other site 634176001955 catalytic site [active] 634176001956 metal binding site [ion binding]; metal-binding site 634176001957 glycerol binding site [chemical binding]; other site 634176001958 homotetramer interface [polypeptide binding]; other site 634176001959 homodimer interface [polypeptide binding]; other site 634176001960 FBP binding site [chemical binding]; other site 634176001961 protein IIAGlc interface [polypeptide binding]; other site 634176001962 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 634176001963 amphipathic channel; other site 634176001964 Asn-Pro-Ala signature motifs; other site 634176001965 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 634176001966 azoreductase; Reviewed; Region: PRK00170 634176001967 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 634176001968 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 634176001969 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 634176001970 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 634176001971 tandem repeat interface [polypeptide binding]; other site 634176001972 oligomer interface [polypeptide binding]; other site 634176001973 active site residues [active] 634176001974 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 634176001975 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 634176001976 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 634176001977 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 634176001978 ligand binding site [chemical binding]; other site 634176001979 Fructosamine kinase; Region: Fructosamin_kin; pfam03881 634176001980 Phosphotransferase enzyme family; Region: APH; pfam01636 634176001981 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 634176001982 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 634176001983 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 634176001984 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 634176001985 active site 634176001986 dimer interface [polypeptide binding]; other site 634176001987 motif 1; other site 634176001988 motif 2; other site 634176001989 motif 3; other site 634176001990 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 634176001991 anticodon binding site; other site 634176001992 translation initiation factor IF-3; Region: infC; TIGR00168 634176001993 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 634176001994 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 634176001995 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 634176001996 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 634176001997 23S rRNA binding site [nucleotide binding]; other site 634176001998 L21 binding site [polypeptide binding]; other site 634176001999 L13 binding site [polypeptide binding]; other site 634176002000 Domain of unknown function (DUF1287); Region: DUF1287; cl01519 634176002001 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 634176002002 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 634176002003 TPP-binding site; other site 634176002004 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 634176002005 PYR/PP interface [polypeptide binding]; other site 634176002006 dimer interface [polypeptide binding]; other site 634176002007 TPP binding site [chemical binding]; other site 634176002008 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 634176002009 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 634176002010 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 634176002011 substrate binding pocket [chemical binding]; other site 634176002012 chain length determination region; other site 634176002013 substrate-Mg2+ binding site; other site 634176002014 catalytic residues [active] 634176002015 aspartate-rich region 1; other site 634176002016 active site lid residues [active] 634176002017 aspartate-rich region 2; other site 634176002018 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 634176002019 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 634176002020 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 634176002021 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 634176002022 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 634176002023 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 634176002024 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 634176002025 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 634176002026 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 634176002027 catalytic core [active] 634176002028 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 634176002029 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 634176002030 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 634176002031 putative active site [active] 634176002032 catalytic site [active] 634176002033 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 634176002034 putative active site [active] 634176002035 catalytic site [active] 634176002036 Predicted membrane protein [Function unknown]; Region: COG2431 634176002037 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 634176002038 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 634176002039 active site 634176002040 EamA-like transporter family; Region: EamA; pfam00892 634176002041 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 634176002042 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 634176002043 PhnA protein; Region: PhnA; pfam03831 634176002044 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 634176002045 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 634176002046 Walker A/P-loop; other site 634176002047 ATP binding site [chemical binding]; other site 634176002048 Q-loop/lid; other site 634176002049 ABC transporter signature motif; other site 634176002050 Walker B; other site 634176002051 D-loop; other site 634176002052 H-loop/switch region; other site 634176002053 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 634176002054 FtsX-like permease family; Region: FtsX; pfam02687 634176002055 macrolide transporter subunit MacA; Provisional; Region: PRK11578 634176002056 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634176002057 HlyD family secretion protein; Region: HlyD_3; pfam13437 634176002058 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 634176002059 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 634176002060 active site 634176002061 HIGH motif; other site 634176002062 nucleotide binding site [chemical binding]; other site 634176002063 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 634176002064 KMSKS motif; other site 634176002065 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 634176002066 hypothetical protein; Provisional; Region: PRK05170 634176002067 glycogen branching enzyme; Provisional; Region: PRK05402 634176002068 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 634176002069 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 634176002070 active site 634176002071 catalytic site [active] 634176002072 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 634176002073 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 634176002074 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 634176002075 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 634176002076 active site 634176002077 catalytic site [active] 634176002078 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 634176002079 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 634176002080 ligand binding site; other site 634176002081 oligomer interface; other site 634176002082 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 634176002083 N-terminal domain interface [polypeptide binding]; other site 634176002084 sulfate 1 binding site; other site 634176002085 glycogen synthase; Provisional; Region: glgA; PRK00654 634176002086 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 634176002087 ADP-binding pocket [chemical binding]; other site 634176002088 homodimer interface [polypeptide binding]; other site 634176002089 glycogen phosphorylase; Provisional; Region: PRK14986 634176002090 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 634176002091 homodimer interface [polypeptide binding]; other site 634176002092 active site pocket [active] 634176002093 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 634176002094 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 634176002095 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 634176002096 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 634176002097 5S rRNA interface [nucleotide binding]; other site 634176002098 CTC domain interface [polypeptide binding]; other site 634176002099 L16 interface [polypeptide binding]; other site 634176002100 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 634176002101 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 634176002102 condesin subunit F; Provisional; Region: PRK05260 634176002103 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 634176002104 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 634176002105 putative substrate translocation pore; other site 634176002106 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 634176002107 putative acyl-acceptor binding pocket; other site 634176002108 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 634176002109 acyl-activating enzyme (AAE) consensus motif; other site 634176002110 putative AMP binding site [chemical binding]; other site 634176002111 condesin subunit E; Provisional; Region: PRK05256 634176002112 Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: MukB; COG3096 634176002113 P-loop containing region of AAA domain; Region: AAA_29; cl17516 634176002114 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 634176002115 exonuclease I; Provisional; Region: sbcB; PRK11779 634176002116 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 634176002117 active site 634176002118 substrate binding site [chemical binding]; other site 634176002119 catalytic site [active] 634176002120 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 634176002121 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 634176002122 Ferritin-like domain; Region: Ferritin; pfam00210 634176002123 ferroxidase diiron center [ion binding]; other site 634176002124 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 634176002125 Ferritin-like domain; Region: Ferritin; pfam00210 634176002126 ferroxidase diiron center [ion binding]; other site 634176002127 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 634176002128 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 634176002129 ligand binding site [chemical binding]; other site 634176002130 flexible hinge region; other site 634176002131 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 634176002132 putative switch regulator; other site 634176002133 non-specific DNA interactions [nucleotide binding]; other site 634176002134 DNA binding site [nucleotide binding] 634176002135 sequence specific DNA binding site [nucleotide binding]; other site 634176002136 putative cAMP binding site [chemical binding]; other site 634176002137 universal stress protein UspE; Provisional; Region: PRK11175 634176002138 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 634176002139 Ligand Binding Site [chemical binding]; other site 634176002140 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 634176002141 Ligand Binding Site [chemical binding]; other site 634176002142 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 634176002143 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 634176002144 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 634176002145 active site 634176002146 interdomain interaction site; other site 634176002147 putative metal-binding site [ion binding]; other site 634176002148 nucleotide binding site [chemical binding]; other site 634176002149 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 634176002150 domain I; other site 634176002151 DNA binding groove [nucleotide binding] 634176002152 phosphate binding site [ion binding]; other site 634176002153 domain II; other site 634176002154 domain III; other site 634176002155 nucleotide binding site [chemical binding]; other site 634176002156 catalytic site [active] 634176002157 domain IV; other site 634176002158 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 634176002159 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 634176002160 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 634176002161 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 634176002162 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634176002163 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634176002164 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 634176002165 putative effector binding pocket; other site 634176002166 dimerization interface [polypeptide binding]; other site 634176002167 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 634176002168 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 634176002169 active site 634176002170 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 634176002171 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E_like proteins; Region: GAT1_Peptidase_E_like; cd03129 634176002172 active site nucleophile [active] 634176002173 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 634176002174 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 634176002175 quinone interaction residues [chemical binding]; other site 634176002176 active site 634176002177 catalytic residues [active] 634176002178 FMN binding site [chemical binding]; other site 634176002179 substrate binding site [chemical binding]; other site 634176002180 aminopeptidase N; Provisional; Region: pepN; PRK14015 634176002181 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 634176002182 active site 634176002183 Zn binding site [ion binding]; other site 634176002184 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 634176002185 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 634176002186 ATP-grasp domain; Region: ATP-grasp; pfam02222 634176002187 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 634176002188 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 634176002189 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634176002190 homodimer interface [polypeptide binding]; other site 634176002191 catalytic residue [active] 634176002192 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 634176002193 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 634176002194 ABC-ATPase subunit interface; other site 634176002195 dimer interface [polypeptide binding]; other site 634176002196 putative PBP binding regions; other site 634176002197 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 634176002198 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 634176002199 Walker A/P-loop; other site 634176002200 ATP binding site [chemical binding]; other site 634176002201 Q-loop/lid; other site 634176002202 ABC transporter signature motif; other site 634176002203 Walker B; other site 634176002204 D-loop; other site 634176002205 H-loop/switch region; other site 634176002206 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 634176002207 putative ligand binding residues [chemical binding]; other site 634176002208 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 634176002209 molybdenum-pterin binding domain; Region: Mop; TIGR00638 634176002210 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634176002211 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634176002212 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 634176002213 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 634176002214 HlyD family secretion protein; Region: HlyD_3; pfam13437 634176002215 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 634176002216 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 634176002217 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 634176002218 outer membrane protein A; Reviewed; Region: PRK10808 634176002219 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 634176002220 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 634176002221 ligand binding site [chemical binding]; other site 634176002222 DoxX; Region: DoxX; pfam07681 634176002223 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 634176002224 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 634176002225 Ligand Binding Site [chemical binding]; other site 634176002226 NlpC/P60 family; Region: NLPC_P60; pfam00877 634176002227 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 634176002228 IHF dimer interface [polypeptide binding]; other site 634176002229 IHF - DNA interface [nucleotide binding]; other site 634176002230 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 634176002231 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 634176002232 putative tRNA-binding site [nucleotide binding]; other site 634176002233 B3/4 domain; Region: B3_4; pfam03483 634176002234 tRNA synthetase B5 domain; Region: B5; smart00874 634176002235 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 634176002236 dimer interface [polypeptide binding]; other site 634176002237 motif 1; other site 634176002238 motif 3; other site 634176002239 motif 2; other site 634176002240 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 634176002241 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 634176002242 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 634176002243 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 634176002244 dimer interface [polypeptide binding]; other site 634176002245 motif 1; other site 634176002246 active site 634176002247 motif 2; other site 634176002248 motif 3; other site 634176002249 heat shock protein HtpX; Provisional; Region: PRK05457 634176002250 KpsF/GutQ family protein; Region: kpsF; TIGR00393 634176002251 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 634176002252 putative active site [active] 634176002253 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 634176002254 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 634176002255 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 634176002256 active site 634176002257 motif I; other site 634176002258 motif II; other site 634176002259 anthranilate synthase component I; Provisional; Region: PRK13564 634176002260 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 634176002261 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 634176002262 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 634176002263 Glutamine amidotransferase class-I; Region: GATase; pfam00117 634176002264 glutamine binding [chemical binding]; other site 634176002265 catalytic triad [active] 634176002266 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 634176002267 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 634176002268 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 634176002269 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 634176002270 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 634176002271 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 634176002272 active site 634176002273 ribulose/triose binding site [chemical binding]; other site 634176002274 phosphate binding site [ion binding]; other site 634176002275 substrate (anthranilate) binding pocket [chemical binding]; other site 634176002276 product (indole) binding pocket [chemical binding]; other site 634176002277 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 634176002278 active site 634176002279 hydrogenase 2 small subunit; Provisional; Region: PRK10468 634176002280 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 634176002281 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 634176002282 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 634176002283 4Fe-4S binding domain; Region: Fer4; cl02805 634176002284 putative hydrogenase 2 b cytochrome subunit; Provisional; Region: PRK10881 634176002285 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 634176002286 hydrogenase 2 large subunit; Provisional; Region: PRK10467 634176002287 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 634176002288 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 634176002289 putative substrate-binding site; other site 634176002290 nickel binding site [ion binding]; other site 634176002291 hydrogenase 2-specific chaperone; Provisional; Region: PRK10465 634176002292 hydrogenase 2 accessory protein HypG; Provisional; Region: PRK10413 634176002293 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 634176002294 oxaloacetate decarboxylase subunit gamma; Provisional; Region: PRK02919 634176002295 oxaloacetate decarboxylase; Provisional; Region: PRK14040 634176002296 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 634176002297 active site 634176002298 catalytic residues [active] 634176002299 metal binding site [ion binding]; metal-binding site 634176002300 homodimer binding site [polypeptide binding]; other site 634176002301 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 634176002302 carboxyltransferase (CT) interaction site; other site 634176002303 biotinylation site [posttranslational modification]; other site 634176002304 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 634176002305 malonic semialdehyde reductase; Provisional; Region: PRK10538 634176002306 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 634176002307 putative NAD(P) binding site [chemical binding]; other site 634176002308 homotetramer interface [polypeptide binding]; other site 634176002309 homodimer interface [polypeptide binding]; other site 634176002310 active site 634176002311 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 634176002312 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 634176002313 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634176002314 catalytic residue [active] 634176002315 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 634176002316 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 634176002317 substrate binding site [chemical binding]; other site 634176002318 active site 634176002319 catalytic residues [active] 634176002320 heterodimer interface [polypeptide binding]; other site 634176002321 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 634176002322 Class I ribonucleotide reductase; Region: RNR_I; cd01679 634176002323 active site 634176002324 dimer interface [polypeptide binding]; other site 634176002325 catalytic residues [active] 634176002326 effector binding site; other site 634176002327 R2 peptide binding site; other site 634176002328 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 634176002329 dimer interface [polypeptide binding]; other site 634176002330 putative radical transfer pathway; other site 634176002331 diiron center [ion binding]; other site 634176002332 tyrosyl radical; other site 634176002333 pyruvate kinase; Provisional; Region: PRK05826 634176002334 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 634176002335 domain interfaces; other site 634176002336 active site 634176002337 autoinducer-2 (AI-2) modifying protein LsrG; Provisional; Region: PRK10486 634176002338 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 634176002339 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 634176002340 putative active site; other site 634176002341 catalytic residue [active] 634176002342 autoinducer 2-binding protein lsrB; Provisional; Region: PRK15408 634176002343 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 634176002344 ligand binding site [chemical binding]; other site 634176002345 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 634176002346 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 634176002347 TM-ABC transporter signature motif; other site 634176002348 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 634176002349 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 634176002350 TM-ABC transporter signature motif; other site 634176002351 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional; Region: PRK15439 634176002352 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 634176002353 Walker A/P-loop; other site 634176002354 ATP binding site [chemical binding]; other site 634176002355 Q-loop/lid; other site 634176002356 ABC transporter signature motif; other site 634176002357 Walker B; other site 634176002358 D-loop; other site 634176002359 H-loop/switch region; other site 634176002360 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 634176002361 transcriptional regulator LsrR; Provisional; Region: PRK15418 634176002362 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 634176002363 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 634176002364 AAA domain; Region: AAA_26; pfam13500 634176002365 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 634176002366 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 634176002367 putative dimer interface [polypeptide binding]; other site 634176002368 putative anticodon binding site; other site 634176002369 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 634176002370 homodimer interface [polypeptide binding]; other site 634176002371 motif 1; other site 634176002372 motif 2; other site 634176002373 active site 634176002374 motif 3; other site 634176002375 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 634176002376 stringent starvation protein A; Provisional; Region: sspA; PRK09481 634176002377 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 634176002378 C-terminal domain interface [polypeptide binding]; other site 634176002379 putative GSH binding site (G-site) [chemical binding]; other site 634176002380 dimer interface [polypeptide binding]; other site 634176002381 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 634176002382 dimer interface [polypeptide binding]; other site 634176002383 N-terminal domain interface [polypeptide binding]; other site 634176002384 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 634176002385 MoaE homodimer interface [polypeptide binding]; other site 634176002386 MoaD interaction [polypeptide binding]; other site 634176002387 active site residues [active] 634176002388 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 634176002389 MoaE interaction surface [polypeptide binding]; other site 634176002390 MoeB interaction surface [polypeptide binding]; other site 634176002391 thiocarboxylated glycine; other site 634176002392 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 634176002393 trimer interface [polypeptide binding]; other site 634176002394 dimer interface [polypeptide binding]; other site 634176002395 putative active site [active] 634176002396 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 634176002397 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 634176002398 FeS/SAM binding site; other site 634176002399 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 634176002400 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 634176002401 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 634176002402 phosphate binding site [ion binding]; other site 634176002403 putative substrate binding pocket [chemical binding]; other site 634176002404 dimer interface [polypeptide binding]; other site 634176002405 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 634176002406 active site pocket [active] 634176002407 oxyanion hole [active] 634176002408 catalytic triad [active] 634176002409 active site nucleophile [active] 634176002410 chaperone protein TorD; Validated; Region: torD; PRK04976 634176002411 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 634176002412 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 634176002413 molybdopterin cofactor binding site [chemical binding]; other site 634176002414 substrate binding site [chemical binding]; other site 634176002415 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 634176002416 molybdopterin cofactor binding site; other site 634176002417 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 634176002418 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 634176002419 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 634176002420 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 634176002421 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 634176002422 Ligand Binding Site [chemical binding]; other site 634176002423 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 634176002424 active site residue [active] 634176002425 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 634176002426 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 634176002427 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 634176002428 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 634176002429 molybdopterin cofactor binding site [chemical binding]; other site 634176002430 substrate binding site [chemical binding]; other site 634176002431 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 634176002432 molybdopterin cofactor binding site; other site 634176002433 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 634176002434 trehalose-6-phosphate hydrolase; Provisional; Region: PRK10933 634176002435 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 634176002436 Ca binding site [ion binding]; other site 634176002437 active site 634176002438 catalytic site [active] 634176002439 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 634176002440 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 634176002441 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 634176002442 active site turn [active] 634176002443 phosphorylation site [posttranslational modification] 634176002444 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 634176002445 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 634176002446 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 634176002447 dimerization interface 3.5A [polypeptide binding]; other site 634176002448 active site 634176002449 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 634176002450 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 634176002451 23S rRNA interface [nucleotide binding]; other site 634176002452 L3 interface [polypeptide binding]; other site 634176002453 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 634176002454 S-adenosylmethionine binding site [chemical binding]; other site 634176002455 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 634176002456 AAA domain; Region: AAA_30; pfam13604 634176002457 Family description; Region: UvrD_C_2; pfam13538 634176002458 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 634176002459 Family description; Region: UvrD_C_2; pfam13538 634176002460 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 634176002461 DsrE/DsrF-like family; Region: DrsE; cl00672 634176002462 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 634176002463 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 634176002464 active site 1 [active] 634176002465 dimer interface [polypeptide binding]; other site 634176002466 active site 2 [active] 634176002467 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 634176002468 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 634176002469 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 634176002470 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 634176002471 DNA-binding site [nucleotide binding]; DNA binding site 634176002472 RNA-binding motif; other site 634176002473 hypothetical protein; Provisional; Region: PRK05114 634176002474 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 634176002475 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 634176002476 probable active site [active] 634176002477 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 634176002478 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; pfam10071 634176002479 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 634176002480 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 634176002481 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 634176002482 Protein of unknown function, DUF462; Region: DUF462; cl01190 634176002483 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 634176002484 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 634176002485 Walker A motif; other site 634176002486 ATP binding site [chemical binding]; other site 634176002487 Walker B motif; other site 634176002488 arginine finger; other site 634176002489 Peptidase family M41; Region: Peptidase_M41; pfam01434 634176002490 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 634176002491 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 634176002492 S-adenosylmethionine binding site [chemical binding]; other site 634176002493 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 634176002494 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 634176002495 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 634176002496 putative active site [active] 634176002497 putative substrate binding site [chemical binding]; other site 634176002498 putative cosubstrate binding site; other site 634176002499 catalytic site [active] 634176002500 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 634176002501 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 634176002502 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 634176002503 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 634176002504 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 634176002505 DNA binding site [nucleotide binding] 634176002506 domain linker motif; other site 634176002507 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 634176002508 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 634176002509 putative active site [active] 634176002510 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 634176002511 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 634176002512 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 634176002513 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 634176002514 DNA binding site [nucleotide binding] 634176002515 domain linker motif; other site 634176002516 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 634176002517 dimerization interface [polypeptide binding]; other site 634176002518 ligand binding site [chemical binding]; other site 634176002519 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 634176002520 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 634176002521 dsDNA-mimic protein; Reviewed; Region: PRK05094 634176002522 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 634176002523 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 634176002524 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 634176002525 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 634176002526 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 634176002527 N-terminal plug; other site 634176002528 ligand-binding site [chemical binding]; other site 634176002529 multidrug efflux protein; Reviewed; Region: PRK01766 634176002530 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 634176002531 cation binding site [ion binding]; other site 634176002532 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 634176002533 Lumazine binding domain; Region: Lum_binding; pfam00677 634176002534 Lumazine binding domain; Region: Lum_binding; pfam00677 634176002535 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 634176002536 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 634176002537 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 634176002538 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 634176002539 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 634176002540 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 634176002541 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 634176002542 homodecamer interface [polypeptide binding]; other site 634176002543 GTP cyclohydrolase I; Provisional; Region: PLN03044 634176002544 active site 634176002545 putative catalytic site residues [active] 634176002546 zinc binding site [ion binding]; other site 634176002547 GTP-CH-I/GFRP interaction surface; other site 634176002548 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 634176002549 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 634176002550 dimer interface [polypeptide binding]; other site 634176002551 putative functional site; other site 634176002552 putative MPT binding site; other site 634176002553 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 634176002554 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 634176002555 ATP binding site [chemical binding]; other site 634176002556 substrate interface [chemical binding]; other site 634176002557 maltose regulon periplasmic protein; Provisional; Region: PRK10564 634176002558 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 634176002559 trimer interface; other site 634176002560 sugar binding site [chemical binding]; other site 634176002561 Alpha amylase catalytic domain found in archaeal and bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_AmyA; cd11313 634176002562 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 634176002563 active site 634176002564 catalytic site [active] 634176002565 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 634176002566 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 634176002567 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 634176002568 Walker A/P-loop; other site 634176002569 ATP binding site [chemical binding]; other site 634176002570 Q-loop/lid; other site 634176002571 ABC transporter signature motif; other site 634176002572 Walker B; other site 634176002573 D-loop; other site 634176002574 H-loop/switch region; other site 634176002575 TOBE domain; Region: TOBE_2; pfam08402 634176002576 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 634176002577 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 634176002578 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 634176002579 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 634176002580 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 634176002581 dimer interface [polypeptide binding]; other site 634176002582 conserved gate region; other site 634176002583 putative PBP binding loops; other site 634176002584 ABC-ATPase subunit interface; other site 634176002585 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 634176002586 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 634176002587 dimer interface [polypeptide binding]; other site 634176002588 conserved gate region; other site 634176002589 putative PBP binding loops; other site 634176002590 ABC-ATPase subunit interface; other site 634176002591 alpha-amylase; Reviewed; Region: malS; PRK09505 634176002592 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 634176002593 active site 634176002594 catalytic site [active] 634176002595 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 634176002596 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 634176002597 transcriptional regulator MalT; Provisional; Region: PRK04841 634176002598 AAA ATPase domain; Region: AAA_16; pfam13191 634176002599 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 634176002600 DNA binding residues [nucleotide binding] 634176002601 dimerization interface [polypeptide binding]; other site 634176002602 maltodextrin phosphorylase; Provisional; Region: PRK14985 634176002603 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 634176002604 homodimer interface [polypeptide binding]; other site 634176002605 active site pocket [active] 634176002606 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 634176002607 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 634176002608 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 634176002609 homodimer interface [polypeptide binding]; other site 634176002610 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 634176002611 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 634176002612 active site 634176002613 homodimer interface [polypeptide binding]; other site 634176002614 catalytic site [active] 634176002615 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 634176002616 Flavoprotein; Region: Flavoprotein; pfam02441 634176002617 amidophosphoribosyltransferase; Provisional; Region: PRK09246 634176002618 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 634176002619 active site 634176002620 tetramer interface [polypeptide binding]; other site 634176002621 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634176002622 active site 634176002623 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 634176002624 Colicin V production protein; Region: Colicin_V; cl00567 634176002625 hypothetical protein; Provisional; Region: PRK01816 634176002626 propionate/acetate kinase; Provisional; Region: PRK12379 634176002627 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 634176002628 phosphate acetyltransferase; Reviewed; Region: PRK05632 634176002629 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 634176002630 DRTGG domain; Region: DRTGG; pfam07085 634176002631 phosphate acetyltransferase; Region: pta; TIGR00651 634176002632 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 634176002633 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 634176002634 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 634176002635 putative substrate translocation pore; other site 634176002636 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 634176002637 catalytic center binding site [active] 634176002638 ATP binding site [chemical binding]; other site 634176002639 poly(A) polymerase; Region: pcnB; TIGR01942 634176002640 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 634176002641 active site 634176002642 NTP binding site [chemical binding]; other site 634176002643 metal binding triad [ion binding]; metal-binding site 634176002644 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 634176002645 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 634176002646 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 634176002647 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 634176002648 Competence protein; Region: Competence; pfam03772 634176002649 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 634176002650 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 634176002651 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 634176002652 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 634176002653 Walker A/P-loop; other site 634176002654 ATP binding site [chemical binding]; other site 634176002655 Q-loop/lid; other site 634176002656 ABC transporter signature motif; other site 634176002657 Walker B; other site 634176002658 D-loop; other site 634176002659 H-loop/switch region; other site 634176002660 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 634176002661 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 634176002662 Uncharacterized conserved protein [Function unknown]; Region: COG2835 634176002663 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 634176002664 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 634176002665 Ligand binding site; other site 634176002666 oligomer interface; other site 634176002667 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 634176002668 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 634176002669 GIY-YIG motif/motif A; other site 634176002670 active site 634176002671 catalytic site [active] 634176002672 putative DNA binding site [nucleotide binding]; other site 634176002673 metal binding site [ion binding]; metal-binding site 634176002674 UvrB/uvrC motif; Region: UVR; pfam02151 634176002675 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 634176002676 Helix-hairpin-helix motif; Region: HHH; pfam00633 634176002677 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 634176002678 Transcriptional regulators [Transcription]; Region: PurR; COG1609 634176002679 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 634176002680 DNA binding site [nucleotide binding] 634176002681 domain linker motif; other site 634176002682 Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_sucrose_transcription_regulator; cd06288 634176002683 putative dimerization interface [polypeptide binding]; other site 634176002684 putative ligand binding site [chemical binding]; other site 634176002685 galactoside permease; Reviewed; Region: lacY; PRK09528 634176002686 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 634176002687 putative substrate translocation pore; other site 634176002688 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 634176002689 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 634176002690 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 634176002691 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 634176002692 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 634176002693 hypothetical protein; Provisional; Region: PRK11622 634176002694 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 634176002695 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 634176002696 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 634176002697 dimer interface [polypeptide binding]; other site 634176002698 conserved gate region; other site 634176002699 putative PBP binding loops; other site 634176002700 ABC-ATPase subunit interface; other site 634176002701 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 634176002702 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 634176002703 dimer interface [polypeptide binding]; other site 634176002704 conserved gate region; other site 634176002705 putative PBP binding loops; other site 634176002706 ABC-ATPase subunit interface; other site 634176002707 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 634176002708 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634176002709 Walker A/P-loop; other site 634176002710 ATP binding site [chemical binding]; other site 634176002711 Q-loop/lid; other site 634176002712 ABC transporter signature motif; other site 634176002713 Walker B; other site 634176002714 D-loop; other site 634176002715 H-loop/switch region; other site 634176002716 selenophosphate synthetase; Provisional; Region: PRK00943 634176002717 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 634176002718 dimerization interface [polypeptide binding]; other site 634176002719 putative ATP binding site [chemical binding]; other site 634176002720 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 634176002721 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 634176002722 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 634176002723 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 634176002724 ligand binding site [chemical binding]; other site 634176002725 homodimer interface [polypeptide binding]; other site 634176002726 NAD(P) binding site [chemical binding]; other site 634176002727 trimer interface B [polypeptide binding]; other site 634176002728 trimer interface A [polypeptide binding]; other site 634176002729 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 634176002730 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 634176002731 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 634176002732 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 634176002733 active site 634176002734 HIGH motif; other site 634176002735 dimer interface [polypeptide binding]; other site 634176002736 KMSKS motif; other site 634176002737 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 634176002738 RNA binding surface [nucleotide binding]; other site 634176002739 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 634176002740 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 634176002741 putative substrate binding site [chemical binding]; other site 634176002742 putative ATP binding site [chemical binding]; other site 634176002743 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 634176002744 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 634176002745 substrate binding [chemical binding]; other site 634176002746 active site 634176002747 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 634176002748 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 634176002749 active site 634176002750 catalytic residues [active] 634176002751 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 634176002752 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 634176002753 RNA binding site [nucleotide binding]; other site 634176002754 active site 634176002755 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 634176002756 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 634176002757 translation initiation factor IF-2; Region: IF-2; TIGR00487 634176002758 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 634176002759 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 634176002760 G1 box; other site 634176002761 putative GEF interaction site [polypeptide binding]; other site 634176002762 GTP/Mg2+ binding site [chemical binding]; other site 634176002763 Switch I region; other site 634176002764 G2 box; other site 634176002765 G3 box; other site 634176002766 Switch II region; other site 634176002767 G4 box; other site 634176002768 G5 box; other site 634176002769 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 634176002770 Translation-initiation factor 2; Region: IF-2; pfam11987 634176002771 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 634176002772 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 634176002773 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 634176002774 NusA N-terminal domain; Region: NusA_N; pfam08529 634176002775 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 634176002776 RNA binding site [nucleotide binding]; other site 634176002777 homodimer interface [polypeptide binding]; other site 634176002778 NusA-like KH domain; Region: KH_5; pfam13184 634176002779 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 634176002780 G-X-X-G motif; other site 634176002781 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 634176002782 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 634176002783 ribosome maturation protein RimP; Reviewed; Region: PRK00092 634176002784 Sm and related proteins; Region: Sm_like; cl00259 634176002785 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 634176002786 putative oligomer interface [polypeptide binding]; other site 634176002787 putative RNA binding site [nucleotide binding]; other site 634176002788 YcgL domain; Region: YcgL; cl01189 634176002789 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 634176002790 Septum formation inhibitor [Cell division and chromosome partitioning]; Region: MinC; COG0850 634176002791 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 634176002792 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 634176002793 catalytic core [active] 634176002794 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 634176002795 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 634176002796 active site 634176002797 substrate binding site [chemical binding]; other site 634176002798 metal binding site [ion binding]; metal-binding site 634176002799 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 634176002800 dihydropteroate synthase; Region: DHPS; TIGR01496 634176002801 substrate binding pocket [chemical binding]; other site 634176002802 dimer interface [polypeptide binding]; other site 634176002803 inhibitor binding site; inhibition site 634176002804 Predicted permeases [General function prediction only]; Region: RarD; COG2962 634176002805 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 634176002806 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 634176002807 AsnC family; Region: AsnC_trans_reg; pfam01037 634176002808 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 634176002809 active site 634176002810 DNA polymerase IV; Validated; Region: PRK02406 634176002811 DNA binding site [nucleotide binding] 634176002812 serine/threonine transporter SstT; Provisional; Region: PRK13628 634176002813 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 634176002814 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 634176002815 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 634176002816 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 634176002817 Helix-turn-helix domain; Region: HTH_28; pfam13518 634176002818 putative transposase OrfB; Reviewed; Region: PHA02517 634176002819 HTH-like domain; Region: HTH_21; pfam13276 634176002820 Integrase core domain; Region: rve; pfam00665 634176002821 Integrase core domain; Region: rve_2; pfam13333 634176002822 NlpC/P60 family; Region: NLPC_P60; pfam00877 634176002823 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 634176002824 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 634176002825 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 634176002826 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 634176002827 peptide chain release factor 1; Validated; Region: prfA; PRK00591 634176002828 This domain is found in peptide chain release factors; Region: PCRF; smart00937 634176002829 RF-1 domain; Region: RF-1; pfam00472 634176002830 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 634176002831 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 634176002832 active site 634176002833 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 634176002834 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 634176002835 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 634176002836 active site 634176002837 HIGH motif; other site 634176002838 KMSK motif region; other site 634176002839 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 634176002840 tRNA binding surface [nucleotide binding]; other site 634176002841 anticodon binding site; other site 634176002842 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 634176002843 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 634176002844 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 634176002845 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 634176002846 nucleotide binding site [chemical binding]; other site 634176002847 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 634176002848 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 634176002849 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 634176002850 active site 634176002851 chaperone protein DnaJ; Provisional; Region: PRK10767 634176002852 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 634176002853 HSP70 interaction site [polypeptide binding]; other site 634176002854 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 634176002855 substrate binding site [polypeptide binding]; other site 634176002856 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 634176002857 Zn binding sites [ion binding]; other site 634176002858 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 634176002859 dimer interface [polypeptide binding]; other site 634176002860 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 634176002861 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 634176002862 trimer interface [polypeptide binding]; other site 634176002863 eyelet of channel; other site 634176002864 cystathionine beta-lyase; Provisional; Region: PRK08114 634176002865 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 634176002866 homodimer interface [polypeptide binding]; other site 634176002867 substrate-cofactor binding pocket; other site 634176002868 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634176002869 catalytic residue [active] 634176002870 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 634176002871 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 634176002872 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 634176002873 P-loop; other site 634176002874 Magnesium ion binding site [ion binding]; other site 634176002875 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 634176002876 Magnesium ion binding site [ion binding]; other site 634176002877 replicative DNA helicase; Region: DnaB; TIGR00665 634176002878 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 634176002879 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 634176002880 Walker A motif; other site 634176002881 ATP binding site [chemical binding]; other site 634176002882 Walker B motif; other site 634176002883 DNA binding loops [nucleotide binding] 634176002884 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 634176002885 ParB-like nuclease domain; Region: ParBc; pfam02195 634176002886 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 634176002887 integrating conjugative element protein, PFL_4669 family; Region: ICE_PFL4669; TIGR03761 634176002888 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 634176002889 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 634176002890 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 634176002891 dimer interface [polypeptide binding]; other site 634176002892 ssDNA binding site [nucleotide binding]; other site 634176002893 tetramer (dimer of dimers) interface [polypeptide binding]; other site 634176002894 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 634176002895 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 634176002896 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 634176002897 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 634176002898 cofactor binding site; other site 634176002899 DNA binding site [nucleotide binding] 634176002900 substrate interaction site [chemical binding]; other site 634176002901 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 634176002902 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 634176002903 active site 634176002904 putative interdomain interaction site [polypeptide binding]; other site 634176002905 putative metal-binding site [ion binding]; other site 634176002906 putative nucleotide binding site [chemical binding]; other site 634176002907 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 634176002908 domain I; other site 634176002909 phosphate binding site [ion binding]; other site 634176002910 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3219 634176002911 Protein of unknown function (DUF692); Region: DUF692; pfam05114 634176002912 Uncharacterized low-complexity protein [Function unknown]; Region: COG3767 634176002913 Predicted membrane protein [Function unknown]; Region: COG2259 634176002914 Integrase core domain; Region: rve_3; pfam13683 634176002915 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 634176002916 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 634176002917 Putative helicase; Region: TraI_2; pfam07514 634176002918 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 634176002919 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 634176002920 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 634176002921 active site 634176002922 catalytic residues [active] 634176002923 DNA binding site [nucleotide binding] 634176002924 Int/Topo IB signature motif; other site 634176002925 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 634176002926 Domain of unknown function DUF302; Region: DUF302; pfam03625 634176002927 Protein of unknown function, DUF417; Region: DUF417; cl01162 634176002928 Haem-binding domain; Region: Haem_bd; pfam14376 634176002929 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 634176002930 ribonuclease D; Provisional; Region: PRK10829 634176002931 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 634176002932 catalytic site [active] 634176002933 putative active site [active] 634176002934 putative substrate binding site [chemical binding]; other site 634176002935 HRDC domain; Region: HRDC; pfam00570 634176002936 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 634176002937 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 634176002938 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 634176002939 acyl-activating enzyme (AAE) consensus motif; other site 634176002940 putative AMP binding site [chemical binding]; other site 634176002941 putative active site [active] 634176002942 putative CoA binding site [chemical binding]; other site 634176002943 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 634176002944 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 634176002945 Glycoprotease family; Region: Peptidase_M22; pfam00814 634176002946 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 634176002947 DEAD_2; Region: DEAD_2; pfam06733 634176002948 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 634176002949 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 634176002950 active site 634176002951 phosphate binding residues; other site 634176002952 catalytic residues [active] 634176002953 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 634176002954 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 634176002955 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 634176002956 dimer interface [polypeptide binding]; other site 634176002957 conserved gate region; other site 634176002958 ABC-ATPase subunit interface; other site 634176002959 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 634176002960 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 634176002961 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 634176002962 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634176002963 Walker A/P-loop; other site 634176002964 ATP binding site [chemical binding]; other site 634176002965 Q-loop/lid; other site 634176002966 ABC transporter signature motif; other site 634176002967 Walker B; other site 634176002968 D-loop; other site 634176002969 H-loop/switch region; other site 634176002970 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 634176002971 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 634176002972 NADP binding site [chemical binding]; other site 634176002973 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 634176002974 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 634176002975 thioredoxin reductase; Provisional; Region: PRK10262 634176002976 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634176002977 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 634176002978 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634176002979 Walker A/P-loop; other site 634176002980 ATP binding site [chemical binding]; other site 634176002981 Q-loop/lid; other site 634176002982 ABC transporter signature motif; other site 634176002983 Walker B; other site 634176002984 D-loop; other site 634176002985 H-loop/switch region; other site 634176002986 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 634176002987 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 634176002988 active site 634176002989 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 634176002990 catalytic triad [active] 634176002991 dimer interface [polypeptide binding]; other site 634176002992 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 634176002993 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 634176002994 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 634176002995 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 634176002996 active site 634176002997 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 634176002998 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 634176002999 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 634176003000 Exopolysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: COG5039 634176003001 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 634176003002 Uncharacterized conserved protein [Function unknown]; Region: COG1434 634176003003 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 634176003004 putative active site [active] 634176003005 Acetokinase family; Region: Acetate_kinase; cl17229 634176003006 DNA ligase; Provisional; Region: PRK09125 634176003007 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 634176003008 DNA binding site [nucleotide binding] 634176003009 active site 634176003010 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 634176003011 DNA binding site [nucleotide binding] 634176003012 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 634176003013 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 634176003014 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 634176003015 Part of AAA domain; Region: AAA_19; pfam13245 634176003016 Family description; Region: UvrD_C_2; pfam13538 634176003017 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 634176003018 fructuronate transporter; Provisional; Region: PRK10034; cl15264 634176003019 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 634176003020 Shikimate kinase; Region: SKI; pfam01202 634176003021 ATP-binding site [chemical binding]; other site 634176003022 Gluconate-6-phosphate binding site [chemical binding]; other site 634176003023 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 634176003024 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 634176003025 DNA binding site [nucleotide binding] 634176003026 domain linker motif; other site 634176003027 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 634176003028 putative ligand binding site [chemical binding]; other site 634176003029 putative dimerization interface [polypeptide binding]; other site 634176003030 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 634176003031 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 634176003032 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 634176003033 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 634176003034 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 634176003035 molybdopterin cofactor binding site; other site 634176003036 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 634176003037 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 634176003038 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 634176003039 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 634176003040 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 634176003041 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 634176003042 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634176003043 Walker A/P-loop; other site 634176003044 ATP binding site [chemical binding]; other site 634176003045 Q-loop/lid; other site 634176003046 ABC transporter signature motif; other site 634176003047 Walker B; other site 634176003048 D-loop; other site 634176003049 H-loop/switch region; other site 634176003050 TOBE domain; Region: TOBE; cl01440 634176003051 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 634176003052 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 634176003053 dimer interface [polypeptide binding]; other site 634176003054 conserved gate region; other site 634176003055 putative PBP binding loops; other site 634176003056 ABC-ATPase subunit interface; other site 634176003057 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 634176003058 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 634176003059 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 634176003060 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 634176003061 molybdenum-pterin binding domain; Region: Mop; TIGR00638 634176003062 TOBE domain; Region: TOBE; pfam03459 634176003063 5'-nucleotidase; Provisional; Region: PRK03826 634176003064 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 634176003065 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 634176003066 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 634176003067 protein binding site [polypeptide binding]; other site 634176003068 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 634176003069 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 634176003070 catalytic motif [active] 634176003071 Zn binding site [ion binding]; other site 634176003072 RibD C-terminal domain; Region: RibD_C; cl17279 634176003073 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 634176003074 ATP cone domain; Region: ATP-cone; pfam03477 634176003075 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 634176003076 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 634176003077 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 634176003078 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634176003079 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 634176003080 dimerization interface [polypeptide binding]; other site 634176003081 substrate binding pocket [chemical binding]; other site 634176003082 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 634176003083 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 634176003084 homodimer interface [polypeptide binding]; other site 634176003085 substrate-cofactor binding pocket; other site 634176003086 catalytic residue [active] 634176003087 malate dehydrogenase; Provisional; Region: PRK05086 634176003088 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 634176003089 NAD binding site [chemical binding]; other site 634176003090 dimerization interface [polypeptide binding]; other site 634176003091 Substrate binding site [chemical binding]; other site 634176003092 arginine repressor; Provisional; Region: PRK05066 634176003093 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 634176003094 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 634176003095 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 634176003096 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 634176003097 putative NAD(P) binding site [chemical binding]; other site 634176003098 putative active site [active] 634176003099 electron transport complex protein RsxA; Provisional; Region: PRK05151 634176003100 electron transport complex protein RnfB; Provisional; Region: PRK05113 634176003101 Putative Fe-S cluster; Region: FeS; pfam04060 634176003102 4Fe-4S binding domain; Region: Fer4; pfam00037 634176003103 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 634176003104 SLBB domain; Region: SLBB; pfam10531 634176003105 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 634176003106 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 634176003107 electron transport complex protein RnfG; Validated; Region: PRK01908 634176003108 electron transport complex RsxE subunit; Provisional; Region: PRK12405 634176003109 endonuclease III; Provisional; Region: PRK10702 634176003110 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 634176003111 minor groove reading motif; other site 634176003112 helix-hairpin-helix signature motif; other site 634176003113 substrate binding pocket [chemical binding]; other site 634176003114 active site 634176003115 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 634176003116 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 634176003117 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 634176003118 PYR/PP interface [polypeptide binding]; other site 634176003119 dimer interface [polypeptide binding]; other site 634176003120 TPP binding site [chemical binding]; other site 634176003121 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 634176003122 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 634176003123 TPP-binding site [chemical binding]; other site 634176003124 dimer interface [polypeptide binding]; other site 634176003125 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 634176003126 active site 634176003127 P-loop; other site 634176003128 phosphorylation site [posttranslational modification] 634176003129 ABC transporter ATPase component; Reviewed; Region: PRK11147 634176003130 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634176003131 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634176003132 Walker A/P-loop; other site 634176003133 ATP binding site [chemical binding]; other site 634176003134 Q-loop/lid; other site 634176003135 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634176003136 ABC transporter signature motif; other site 634176003137 Walker B; other site 634176003138 D-loop; other site 634176003139 ABC transporter; Region: ABC_tran_2; pfam12848 634176003140 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634176003141 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 634176003142 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 634176003143 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 634176003144 LrgB-like family; Region: LrgB; cl00596 634176003145 hypothetical protein; Provisional; Region: PRK01821 634176003146 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 634176003147 CPxP motif; other site 634176003148 Sulphur transport; Region: Sulf_transp; pfam04143 634176003149 Staphylococcal nuclease homologues; Region: SNc; smart00318 634176003150 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 634176003151 Catalytic site; other site 634176003152 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 634176003153 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 634176003154 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634176003155 catalytic residue [active] 634176003156 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 634176003157 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 634176003158 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 634176003159 putative ribose interaction site [chemical binding]; other site 634176003160 putative ADP binding site [chemical binding]; other site 634176003161 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 634176003162 active site 634176003163 nucleotide binding site [chemical binding]; other site 634176003164 HIGH motif; other site 634176003165 KMSKS motif; other site 634176003166 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 634176003167 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 634176003168 putative acyl-acceptor binding pocket; other site 634176003169 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 634176003170 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 634176003171 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 634176003172 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 634176003173 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 634176003174 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 634176003175 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 634176003176 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 634176003177 active site 634176003178 metal binding site [ion binding]; metal-binding site 634176003179 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 634176003180 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 634176003181 N-terminal plug; other site 634176003182 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 634176003183 ligand-binding site [chemical binding]; other site 634176003184 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 634176003185 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 634176003186 putative ligand binding residues [chemical binding]; other site 634176003187 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 634176003188 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 634176003189 ABC-ATPase subunit interface; other site 634176003190 dimer interface [polypeptide binding]; other site 634176003191 putative PBP binding regions; other site 634176003192 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 634176003193 ABC-ATPase subunit interface; other site 634176003194 dimer interface [polypeptide binding]; other site 634176003195 putative PBP binding regions; other site 634176003196 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 634176003197 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 634176003198 Walker A/P-loop; other site 634176003199 ATP binding site [chemical binding]; other site 634176003200 Q-loop/lid; other site 634176003201 ABC transporter signature motif; other site 634176003202 Walker B; other site 634176003203 D-loop; other site 634176003204 H-loop/switch region; other site 634176003205 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 634176003206 molybdopterin cofactor binding site; other site 634176003207 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 634176003208 molybdopterin cofactor binding site; other site 634176003209 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 634176003210 Archaeal ATPase; Region: Arch_ATPase; pfam01637 634176003211 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 634176003212 DNA binding residues [nucleotide binding] 634176003213 Endopeptidases belonging to membrane-bound hydrogen evolving hydrogenase group. In hydrogenase 3 from E coli, the maturation of the large subunit (HycE) requires the cleavage of a C-terminal peptide by the endopeptidase HycI, before the final formation...; Region: H2MP_MemB-H2evol; cd06067 634176003214 nickel binding site [ion binding]; other site 634176003215 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 634176003216 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 634176003217 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 634176003218 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 634176003219 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 634176003220 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 634176003221 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 634176003222 hydrogenase 4 subunit F; Validated; Region: PRK06458 634176003223 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 634176003224 hydrogenase 4 membrane subunit; Provisional; Region: hyfE; PRK11492 634176003225 hydrogenase 4 subunit D; Validated; Region: PRK06525 634176003226 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 634176003227 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 634176003228 NADH dehydrogenase; Region: NADHdh; cl00469 634176003229 hydrogenase 4 subunit B; Validated; Region: PRK06521 634176003230 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 634176003231 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 634176003232 4Fe-4S binding domain; Region: Fer4; pfam00037 634176003233 Acylphosphatase; Region: Acylphosphatase; pfam00708 634176003234 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 634176003235 HypF finger; Region: zf-HYPF; pfam07503 634176003236 HypF finger; Region: zf-HYPF; pfam07503 634176003237 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 634176003238 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 634176003239 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 634176003240 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 634176003241 shikimate binding site; other site 634176003242 NAD(P) binding site [chemical binding]; other site 634176003243 Streptomycin adenylyltransferase; Region: Adenyl_transf; pfam04439 634176003244 Pathogenicity locus; Region: Cdd1; pfam11731 634176003245 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 634176003246 dimerization interface [polypeptide binding]; other site 634176003247 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 634176003248 ATP binding site [chemical binding]; other site 634176003249 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 634176003250 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 634176003251 hydrogenase nickel incorporation protein HypB; Provisional; Region: PRK10463 634176003252 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 634176003253 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 634176003254 Walker A/P-loop; other site 634176003255 ATP binding site [chemical binding]; other site 634176003256 Q-loop/lid; other site 634176003257 ABC transporter signature motif; other site 634176003258 Walker B; other site 634176003259 D-loop; other site 634176003260 H-loop/switch region; other site 634176003261 Cobalt transport protein; Region: CbiQ; cl00463 634176003262 cobalt transport protein CbiM; Validated; Region: PRK06265 634176003263 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 634176003264 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 634176003265 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 634176003266 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 634176003267 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 634176003268 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 634176003269 catalytic residues [active] 634176003270 hinge region; other site 634176003271 alpha helical domain; other site 634176003272 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 634176003273 DHH family; Region: DHH; pfam01368 634176003274 DHHA1 domain; Region: DHHA1; pfam02272 634176003275 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 634176003276 dimerization domain [polypeptide binding]; other site 634176003277 dimer interface [polypeptide binding]; other site 634176003278 catalytic residues [active] 634176003279 This domain is found in peptide chain release factors; Region: PCRF; smart00937 634176003280 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 634176003281 RF-1 domain; Region: RF-1; pfam00472 634176003282 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 634176003283 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 634176003284 dimer interface [polypeptide binding]; other site 634176003285 putative anticodon binding site; other site 634176003286 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 634176003287 motif 1; other site 634176003288 active site 634176003289 motif 2; other site 634176003290 motif 3; other site 634176003291 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 634176003292 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 634176003293 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 634176003294 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 634176003295 HSP70 interaction site [polypeptide binding]; other site 634176003296 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 634176003297 substrate binding site [polypeptide binding]; other site 634176003298 dimer interface [polypeptide binding]; other site 634176003299 GTP-binding protein Der; Reviewed; Region: PRK00093 634176003300 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 634176003301 G1 box; other site 634176003302 GTP/Mg2+ binding site [chemical binding]; other site 634176003303 Switch I region; other site 634176003304 G2 box; other site 634176003305 Switch II region; other site 634176003306 G3 box; other site 634176003307 G4 box; other site 634176003308 G5 box; other site 634176003309 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 634176003310 G1 box; other site 634176003311 GTP/Mg2+ binding site [chemical binding]; other site 634176003312 Switch I region; other site 634176003313 G2 box; other site 634176003314 G3 box; other site 634176003315 Switch II region; other site 634176003316 G4 box; other site 634176003317 G5 box; other site 634176003318 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 634176003319 putative arabinose transporter; Provisional; Region: PRK03545 634176003320 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 634176003321 putative substrate translocation pore; other site 634176003322 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 634176003323 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 634176003324 trimer interface [polypeptide binding]; other site 634176003325 active site 634176003326 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 634176003327 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 634176003328 Sugar specificity; other site 634176003329 Pyrimidine base specificity; other site 634176003330 ATP-binding site [chemical binding]; other site 634176003331 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 634176003332 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 634176003333 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 634176003334 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 634176003335 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 634176003336 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 634176003337 dimer interface [polypeptide binding]; other site 634176003338 conserved gate region; other site 634176003339 putative PBP binding loops; other site 634176003340 ABC-ATPase subunit interface; other site 634176003341 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 634176003342 dimer interface [polypeptide binding]; other site 634176003343 conserved gate region; other site 634176003344 putative PBP binding loops; other site 634176003345 ABC-ATPase subunit interface; other site 634176003346 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 634176003347 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 634176003348 Walker A/P-loop; other site 634176003349 ATP binding site [chemical binding]; other site 634176003350 Q-loop/lid; other site 634176003351 ABC transporter signature motif; other site 634176003352 Walker B; other site 634176003353 D-loop; other site 634176003354 H-loop/switch region; other site 634176003355 TOBE domain; Region: TOBE_2; pfam08402 634176003356 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 634176003357 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 634176003358 active site 634176003359 dimerization interface [polypeptide binding]; other site 634176003360 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 634176003361 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 634176003362 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 634176003363 Rrf2 family protein; Region: rrf2_super; TIGR00738 634176003364 cysteine desulfurase; Provisional; Region: PRK14012 634176003365 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 634176003366 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634176003367 catalytic residue [active] 634176003368 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 634176003369 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 634176003370 trimerization site [polypeptide binding]; other site 634176003371 active site 634176003372 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 634176003373 co-chaperone HscB; Provisional; Region: hscB; PRK01773 634176003374 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 634176003375 HSP70 interaction site [polypeptide binding]; other site 634176003376 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 634176003377 chaperone protein HscA; Provisional; Region: hscA; PRK05183 634176003378 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 634176003379 nucleotide binding site [chemical binding]; other site 634176003380 putative NEF/HSP70 interaction site [polypeptide binding]; other site 634176003381 SBD interface [polypeptide binding]; other site 634176003382 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 634176003383 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 634176003384 catalytic loop [active] 634176003385 iron binding site [ion binding]; other site 634176003386 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 634176003387 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 634176003388 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 634176003389 active site 634176003390 HIGH motif; other site 634176003391 KMSKS motif; other site 634176003392 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 634176003393 tRNA binding surface [nucleotide binding]; other site 634176003394 anticodon binding site; other site 634176003395 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 634176003396 dimer interface [polypeptide binding]; other site 634176003397 putative tRNA-binding site [nucleotide binding]; other site 634176003398 antiporter inner membrane protein; Provisional; Region: PRK11670 634176003399 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 634176003400 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG3683 634176003401 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 634176003402 excinuclease ABC subunit B; Provisional; Region: PRK05298 634176003403 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 634176003404 ATP binding site [chemical binding]; other site 634176003405 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 634176003406 nucleotide binding region [chemical binding]; other site 634176003407 ATP-binding site [chemical binding]; other site 634176003408 Ultra-violet resistance protein B; Region: UvrB; pfam12344 634176003409 UvrB/uvrC motif; Region: UVR; pfam02151 634176003410 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 634176003411 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 634176003412 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 634176003413 protein binding site [polypeptide binding]; other site 634176003414 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 634176003415 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 634176003416 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634176003417 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634176003418 ABC transporter; Region: ABC_tran_2; pfam12848 634176003419 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634176003420 YadA-like C-terminal region; Region: YadA; pfam03895 634176003421 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 634176003422 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 634176003423 ATP binding site [chemical binding]; other site 634176003424 Mg2+ binding site [ion binding]; other site 634176003425 G-X-G motif; other site 634176003426 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 634176003427 anchoring element; other site 634176003428 dimer interface [polypeptide binding]; other site 634176003429 ATP binding site [chemical binding]; other site 634176003430 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 634176003431 active site 634176003432 putative metal-binding site [ion binding]; other site 634176003433 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 634176003434 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 634176003435 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 634176003436 CAP-like domain; other site 634176003437 active site 634176003438 primary dimer interface [polypeptide binding]; other site 634176003439 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 634176003440 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 634176003441 dimerization interface [polypeptide binding]; other site 634176003442 DPS ferroxidase diiron center [ion binding]; other site 634176003443 ion pore; other site 634176003444 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 634176003445 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634176003446 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 634176003447 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 634176003448 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 634176003449 putative substrate translocation pore; other site 634176003450 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 634176003451 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 634176003452 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 634176003453 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 634176003454 non-specific DNA binding site [nucleotide binding]; other site 634176003455 salt bridge; other site 634176003456 sequence-specific DNA binding site [nucleotide binding]; other site 634176003457 HipA N-terminal domain; Region: couple_hipA; TIGR03071 634176003458 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 634176003459 HipA-like N-terminal domain; Region: HipA_N; pfam07805 634176003460 HipA-like C-terminal domain; Region: HipA_C; pfam07804 634176003461 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 634176003462 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 634176003463 HIGH motif; other site 634176003464 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 634176003465 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 634176003466 active site 634176003467 KMSKS motif; other site 634176003468 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 634176003469 tRNA binding surface [nucleotide binding]; other site 634176003470 anticodon binding site; other site 634176003471 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 634176003472 UV radiation resistance protein and autophagy-related subunit 14; Region: Atg14; pfam10186 634176003473 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 634176003474 DNA polymerase III subunit chi; Validated; Region: PRK05728 634176003475 fumarate hydratase; Reviewed; Region: fumC; PRK00485 634176003476 Class II fumarases; Region: Fumarase_classII; cd01362 634176003477 active site 634176003478 tetramer interface [polypeptide binding]; other site 634176003479 hypothetical protein; Provisional; Region: PRK04940 634176003480 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 634176003481 ATP-grasp domain; Region: ATP-grasp_4; cl17255 634176003482 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 634176003483 dimer interface [polypeptide binding]; other site 634176003484 FMN binding site [chemical binding]; other site 634176003485 NADPH bind site [chemical binding]; other site 634176003486 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 634176003487 GSH binding site [chemical binding]; other site 634176003488 catalytic residues [active] 634176003489 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 634176003490 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; pfam03222 634176003491 aromatic amino acid transport protein; Region: araaP; TIGR00837 634176003492 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 634176003493 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 634176003494 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 634176003495 intersubunit interface [polypeptide binding]; other site 634176003496 active site 634176003497 Zn2+ binding site [ion binding]; other site 634176003498 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 634176003499 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 634176003500 AP (apurinic/apyrimidinic) site pocket; other site 634176003501 DNA interaction; other site 634176003502 Metal-binding active site; metal-binding site 634176003503 transcriptional repressor UlaR; Provisional; Region: PRK13509 634176003504 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 634176003505 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 634176003506 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 634176003507 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 634176003508 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 634176003509 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 634176003510 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 634176003511 active site 634176003512 P-loop; other site 634176003513 phosphorylation site [posttranslational modification] 634176003514 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 634176003515 active site 634176003516 phosphorylation site [posttranslational modification] 634176003517 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 634176003518 active site 634176003519 dimer interface [polypeptide binding]; other site 634176003520 magnesium binding site [ion binding]; other site 634176003521 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 634176003522 hypothetical protein; Provisional; Region: PRK05423 634176003523 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 634176003524 homodimer interface [polypeptide binding]; other site 634176003525 substrate-cofactor binding pocket; other site 634176003526 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634176003527 catalytic residue [active] 634176003528 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 634176003529 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 634176003530 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634176003531 homodimer interface [polypeptide binding]; other site 634176003532 catalytic residue [active] 634176003533 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 634176003534 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 634176003535 hinge; other site 634176003536 active site 634176003537 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 634176003538 active site 634176003539 catalytic residues [active] 634176003540 galactokinase; Provisional; Region: PRK05101 634176003541 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 634176003542 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 634176003543 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 634176003544 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 634176003545 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 634176003546 dimer interface [polypeptide binding]; other site 634176003547 active site 634176003548 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 634176003549 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 634176003550 DNA binding site [nucleotide binding] 634176003551 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 634176003552 dimerization interface (closed form) [polypeptide binding]; other site 634176003553 ligand binding site [chemical binding]; other site 634176003554 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 634176003555 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 634176003556 ligand binding site [chemical binding]; other site 634176003557 calcium binding site [ion binding]; other site 634176003558 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 634176003559 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 634176003560 Walker A/P-loop; other site 634176003561 ATP binding site [chemical binding]; other site 634176003562 Q-loop/lid; other site 634176003563 ABC transporter signature motif; other site 634176003564 Walker B; other site 634176003565 D-loop; other site 634176003566 H-loop/switch region; other site 634176003567 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 634176003568 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 634176003569 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 634176003570 TM-ABC transporter signature motif; other site 634176003571 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 634176003572 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 634176003573 dimer interface [polypeptide binding]; other site 634176003574 phosphorylation site [posttranslational modification] 634176003575 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 634176003576 ATP binding site [chemical binding]; other site 634176003577 Mg2+ binding site [ion binding]; other site 634176003578 G-X-G motif; other site 634176003579 Response regulator receiver domain; Region: Response_reg; pfam00072 634176003580 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 634176003581 active site 634176003582 phosphorylation site [posttranslational modification] 634176003583 intermolecular recognition site; other site 634176003584 dimerization interface [polypeptide binding]; other site 634176003585 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 634176003586 putative binding surface; other site 634176003587 active site 634176003588 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 634176003589 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 634176003590 dimer interface [polypeptide binding]; other site 634176003591 active site 634176003592 potential frameshift: common BLAST hit: gi|52425647|ref|YP_088784.1| 5-methylaminomethyl-2-thiouridine methyltransferase 634176003593 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 634176003594 Uncharacterized conserved protein [Function unknown]; Region: COG4121 634176003595 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 634176003596 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 634176003597 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 634176003598 GrpE; Region: GrpE; pfam01025 634176003599 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 634176003600 dimer interface [polypeptide binding]; other site 634176003601 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 634176003602 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 634176003603 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 634176003604 recombination and repair protein; Provisional; Region: PRK10869 634176003605 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 634176003606 Walker A/P-loop; other site 634176003607 ATP binding site [chemical binding]; other site 634176003608 Q-loop/lid; other site 634176003609 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 634176003610 ABC transporter signature motif; other site 634176003611 Walker B; other site 634176003612 D-loop; other site 634176003613 H-loop/switch region; other site 634176003614 intracellular septation protein A; Reviewed; Region: PRK00259 634176003615 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 634176003616 YciI-like protein; Reviewed; Region: PRK11370 634176003617 lytic murein transglycosylase; Provisional; Region: PRK11619 634176003618 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 634176003619 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634176003620 catalytic residue [active] 634176003621 Trp operon repressor; Provisional; Region: PRK01381 634176003622 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 634176003623 Transglycosylase; Region: Transgly; cl17702 634176003624 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 634176003625 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634176003626 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 634176003627 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 634176003628 Walker A/P-loop; other site 634176003629 Walker A/P-loop; other site 634176003630 ATP binding site [chemical binding]; other site 634176003631 ATP binding site [chemical binding]; other site 634176003632 Q-loop/lid; other site 634176003633 ABC transporter signature motif; other site 634176003634 Walker B; other site 634176003635 D-loop; other site 634176003636 H-loop/switch region; other site 634176003637 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 634176003638 DNA topoisomerase III; Provisional; Region: PRK07726 634176003639 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 634176003640 active site 634176003641 putative interdomain interaction site [polypeptide binding]; other site 634176003642 putative metal-binding site [ion binding]; other site 634176003643 putative nucleotide binding site [chemical binding]; other site 634176003644 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 634176003645 domain I; other site 634176003646 DNA binding groove [nucleotide binding] 634176003647 phosphate binding site [ion binding]; other site 634176003648 domain II; other site 634176003649 domain III; other site 634176003650 nucleotide binding site [chemical binding]; other site 634176003651 catalytic site [active] 634176003652 domain IV; other site 634176003653 recombination protein RecR; Reviewed; Region: recR; PRK00076 634176003654 RecR protein; Region: RecR; pfam02132 634176003655 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 634176003656 putative active site [active] 634176003657 putative metal-binding site [ion binding]; other site 634176003658 tetramer interface [polypeptide binding]; other site 634176003659 hypothetical protein; Validated; Region: PRK00153 634176003660 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 634176003661 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 634176003662 putative active site [active] 634176003663 putative metal binding site [ion binding]; other site 634176003664 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 634176003665 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 634176003666 siderophore binding site; other site 634176003667 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 634176003668 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 634176003669 ABC-ATPase subunit interface; other site 634176003670 dimer interface [polypeptide binding]; other site 634176003671 putative PBP binding regions; other site 634176003672 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 634176003673 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 634176003674 ABC-ATPase subunit interface; other site 634176003675 dimer interface [polypeptide binding]; other site 634176003676 putative PBP binding regions; other site 634176003677 iron-dicitrate transporter ATP-binding subunit; Provisional; Region: fecE; PRK11231 634176003678 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 634176003679 Walker A/P-loop; other site 634176003680 ATP binding site [chemical binding]; other site 634176003681 Q-loop/lid; other site 634176003682 ABC transporter signature motif; other site 634176003683 Walker B; other site 634176003684 D-loop; other site 634176003685 H-loop/switch region; other site 634176003686 poxB regulator PoxA; Provisional; Region: PRK09350 634176003687 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 634176003688 motif 1; other site 634176003689 dimer interface [polypeptide binding]; other site 634176003690 active site 634176003691 motif 2; other site 634176003692 motif 3; other site 634176003693 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 634176003694 L-aspartate oxidase; Provisional; Region: PRK06175 634176003695 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 634176003696 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 634176003697 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 634176003698 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 634176003699 D-subunit interface [polypeptide binding]; other site 634176003700 Iron-sulfur protein interface; other site 634176003701 proximal quinone binding site [chemical binding]; other site 634176003702 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 634176003703 Iron-sulfur protein interface; other site 634176003704 proximal quinone binding site [chemical binding]; other site 634176003705 C-subunit interface; other site 634176003706 distal quinone binding site; other site 634176003707 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 634176003708 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 634176003709 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 634176003710 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 634176003711 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634176003712 homodimer interface [polypeptide binding]; other site 634176003713 catalytic residue [active] 634176003714 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 634176003715 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 634176003716 Hemerythrin-like domain; Region: Hr-like; cd12108 634176003717 SirA-like protein; Region: SirA; pfam01206 634176003718 CPxP motif; other site 634176003719 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 634176003720 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 634176003721 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 634176003722 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 634176003723 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 634176003724 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 634176003725 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 634176003726 Protein export membrane protein; Region: SecD_SecF; pfam02355 634176003727 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 634176003728 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 634176003729 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 634176003730 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 634176003731 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 634176003732 putative catalytic cysteine [active] 634176003733 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 634176003734 putative active site [active] 634176003735 metal binding site [ion binding]; metal-binding site 634176003736 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 634176003737 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 634176003738 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 634176003739 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 634176003740 tetrameric interface [polypeptide binding]; other site 634176003741 NAD binding site [chemical binding]; other site 634176003742 catalytic residues [active] 634176003743 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 634176003744 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 634176003745 putative substrate translocation pore; other site 634176003746 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 634176003747 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 634176003748 active site 634176003749 dimerization interface [polypeptide binding]; other site 634176003750 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 634176003751 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 634176003752 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 634176003753 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 634176003754 putative active site [active] 634176003755 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 634176003756 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 634176003757 substrate binding site [chemical binding]; other site 634176003758 ATP binding site [chemical binding]; other site 634176003759 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 634176003760 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 634176003761 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 634176003762 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 634176003763 PYR/PP interface [polypeptide binding]; other site 634176003764 dimer interface [polypeptide binding]; other site 634176003765 TPP binding site [chemical binding]; other site 634176003766 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 634176003767 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 634176003768 TPP-binding site; other site 634176003769 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 634176003770 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 634176003771 Metal-binding active site; metal-binding site 634176003772 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 634176003773 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 634176003774 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 634176003775 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 634176003776 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 634176003777 Sel1 repeat; Region: Sel1; cl02723 634176003778 Sel1-like repeats; Region: SEL1; smart00671 634176003779 Sel1-like repeats; Region: SEL1; smart00671 634176003780 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 634176003781 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 634176003782 dimer interface [polypeptide binding]; other site 634176003783 active site 634176003784 glycine-pyridoxal phosphate binding site [chemical binding]; other site 634176003785 folate binding site [chemical binding]; other site 634176003786 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 634176003787 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 634176003788 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 634176003789 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 634176003790 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 634176003791 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 634176003792 purine monophosphate binding site [chemical binding]; other site 634176003793 dimer interface [polypeptide binding]; other site 634176003794 putative catalytic residues [active] 634176003795 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 634176003796 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 634176003797 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 634176003798 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 634176003799 active site turn [active] 634176003800 phosphorylation site [posttranslational modification] 634176003801 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 634176003802 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 634176003803 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 634176003804 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 634176003805 S-adenosylmethionine binding site [chemical binding]; other site 634176003806 DNA polymerase III subunit psi; Validated; Region: PRK06856 634176003807 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 634176003808 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 634176003809 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 634176003810 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 634176003811 Protein of unknown function (DUF2572); Region: DUF2572; pfam10833 634176003812 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 634176003813 hypothetical protein; Provisional; Region: PRK10506 634176003814 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 634176003815 ligand binding site [chemical binding]; other site 634176003816 translocation protein TolB; Provisional; Region: tolB; PRK01742 634176003817 TolB amino-terminal domain; Region: TolB_N; pfam04052 634176003818 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 634176003819 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 634176003820 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 634176003821 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634176003822 colicin uptake protein TolR; Provisional; Region: PRK11024 634176003823 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 634176003824 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 634176003825 active site 634176003826 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 634176003827 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 634176003828 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 634176003829 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 634176003830 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 634176003831 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 634176003832 Walker A motif; other site 634176003833 ATP binding site [chemical binding]; other site 634176003834 Walker B motif; other site 634176003835 arginine finger; other site 634176003836 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 634176003837 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 634176003838 RuvA N terminal domain; Region: RuvA_N; pfam01330 634176003839 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 634176003840 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 634176003841 active site 634176003842 putative DNA-binding cleft [nucleotide binding]; other site 634176003843 dimer interface [polypeptide binding]; other site 634176003844 hypothetical protein; Validated; Region: PRK00110 634176003845 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 634176003846 nudix motif; other site 634176003847 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 634176003848 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 634176003849 dimer interface [polypeptide binding]; other site 634176003850 anticodon binding site; other site 634176003851 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 634176003852 homodimer interface [polypeptide binding]; other site 634176003853 motif 1; other site 634176003854 active site 634176003855 motif 2; other site 634176003856 GAD domain; Region: GAD; pfam02938 634176003857 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 634176003858 active site 634176003859 motif 3; other site 634176003860 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 634176003861 S-adenosylmethionine binding site [chemical binding]; other site 634176003862 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 634176003863 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 634176003864 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 634176003865 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 634176003866 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 634176003867 putative substrate translocation pore; other site 634176003868 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 634176003869 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 634176003870 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 634176003871 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 634176003872 dimer interface [polypeptide binding]; other site 634176003873 active site 634176003874 metal binding site [ion binding]; metal-binding site 634176003875 glutathione binding site [chemical binding]; other site 634176003876 ribonuclease T; Provisional; Region: PRK05168 634176003877 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 634176003878 active site 634176003879 catalytic site [active] 634176003880 substrate binding site [chemical binding]; other site 634176003881 Predicted permease [General function prediction only]; Region: COG2056 634176003882 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 634176003883 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 634176003884 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 634176003885 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 634176003886 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 634176003887 FeS/SAM binding site; other site 634176003888 TRAM domain; Region: TRAM; pfam01938 634176003889 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 634176003890 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 634176003891 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 634176003892 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 634176003893 substrate binding pocket [chemical binding]; other site 634176003894 chain length determination region; other site 634176003895 substrate-Mg2+ binding site; other site 634176003896 catalytic residues [active] 634176003897 aspartate-rich region 1; other site 634176003898 active site lid residues [active] 634176003899 aspartate-rich region 2; other site 634176003900 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 634176003901 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 634176003902 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 634176003903 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 634176003904 EamA-like transporter family; Region: EamA; pfam00892 634176003905 EamA-like transporter family; Region: EamA; pfam00892 634176003906 GTPase CgtA; Reviewed; Region: obgE; PRK12298 634176003907 GTP1/OBG; Region: GTP1_OBG; pfam01018 634176003908 Obg GTPase; Region: Obg; cd01898 634176003909 G1 box; other site 634176003910 GTP/Mg2+ binding site [chemical binding]; other site 634176003911 Switch I region; other site 634176003912 G2 box; other site 634176003913 G3 box; other site 634176003914 Switch II region; other site 634176003915 G4 box; other site 634176003916 G5 box; other site 634176003917 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 634176003918 SmpB-tmRNA interface; other site 634176003919 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 634176003920 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 634176003921 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 634176003922 peptide binding site [polypeptide binding]; other site 634176003923 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 634176003924 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 634176003925 dimer interface [polypeptide binding]; other site 634176003926 conserved gate region; other site 634176003927 putative PBP binding loops; other site 634176003928 ABC-ATPase subunit interface; other site 634176003929 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 634176003930 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 634176003931 dimer interface [polypeptide binding]; other site 634176003932 conserved gate region; other site 634176003933 ABC-ATPase subunit interface; other site 634176003934 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 634176003935 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 634176003936 Walker A/P-loop; other site 634176003937 ATP binding site [chemical binding]; other site 634176003938 Q-loop/lid; other site 634176003939 ABC transporter signature motif; other site 634176003940 Walker B; other site 634176003941 D-loop; other site 634176003942 H-loop/switch region; other site 634176003943 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 634176003944 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 634176003945 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 634176003946 Walker A/P-loop; other site 634176003947 ATP binding site [chemical binding]; other site 634176003948 Q-loop/lid; other site 634176003949 ABC transporter signature motif; other site 634176003950 Walker B; other site 634176003951 D-loop; other site 634176003952 H-loop/switch region; other site 634176003953 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 634176003954 two-component response regulator; Provisional; Region: PRK11173 634176003955 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 634176003956 active site 634176003957 phosphorylation site [posttranslational modification] 634176003958 intermolecular recognition site; other site 634176003959 dimerization interface [polypeptide binding]; other site 634176003960 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 634176003961 DNA binding site [nucleotide binding] 634176003962 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 634176003963 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 634176003964 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 634176003965 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 634176003966 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 634176003967 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 634176003968 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 634176003969 DsbD alpha interface [polypeptide binding]; other site 634176003970 catalytic residues [active] 634176003971 Predicted membrane protein [Function unknown]; Region: COG2259 634176003972 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 634176003973 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 634176003974 homodimer interface [polypeptide binding]; other site 634176003975 oligonucleotide binding site [chemical binding]; other site 634176003976 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 634176003977 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 634176003978 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 634176003979 RNA binding surface [nucleotide binding]; other site 634176003980 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 634176003981 active site 634176003982 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 634176003983 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 634176003984 catalytic residues [active] 634176003985 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 634176003986 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 634176003987 putative ligand binding site [chemical binding]; other site 634176003988 putative NAD binding site [chemical binding]; other site 634176003989 catalytic site [active] 634176003990 cystathionine gamma-synthase; Reviewed; Region: PRK08247 634176003991 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 634176003992 homodimer interface [polypeptide binding]; other site 634176003993 substrate-cofactor binding pocket; other site 634176003994 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634176003995 catalytic residue [active] 634176003996 aspartate kinase III; Validated; Region: PRK09084 634176003997 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 634176003998 nucleotide binding site [chemical binding]; other site 634176003999 substrate binding site [chemical binding]; other site 634176004000 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 634176004001 lysine allosteric regulatory site; other site 634176004002 dimer interface [polypeptide binding]; other site 634176004003 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 634176004004 dimer interface [polypeptide binding]; other site 634176004005 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 634176004006 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 634176004007 putative catalytic cysteine [active] 634176004008 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 634176004009 Haemagglutinin; Region: HIM; pfam05662 634176004010 YadA-like C-terminal region; Region: YadA; pfam03895 634176004011 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 634176004012 AMP binding site [chemical binding]; other site 634176004013 metal binding site [ion binding]; metal-binding site 634176004014 active site 634176004015 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 634176004016 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 634176004017 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 634176004018 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 634176004019 potential protein location (hypothetical protein NT05HA_1411 [Aggregatibacter aphrophilus NJ8700]) that overlaps RNA (tRNA-M) 634176004020 murein transglycosylase A; Provisional; Region: mltA; PRK11162 634176004021 MltA specific insert domain; Region: MltA; smart00925 634176004022 3D domain; Region: 3D; pfam06725 634176004023 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 634176004024 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 634176004025 putative ATP binding site [chemical binding]; other site 634176004026 putative substrate interface [chemical binding]; other site 634176004027 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 634176004028 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 634176004029 metal binding site [ion binding]; metal-binding site 634176004030 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 634176004031 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 634176004032 TrkA-N domain; Region: TrkA_N; pfam02254 634176004033 Predicted secreted acid phosphatase [General function prediction only]; Region: COG2503 634176004034 potential protein location (cell wall-associated hydrolase [Aggregatibacter aphrophilus NJ8700]) that overlaps RNA (23S ribosomal RNA) 634176004035 glutamate racemase; Provisional; Region: PRK00865 634176004036 hypothetical protein; Validated; Region: PRK01777 634176004037 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 634176004038 putative coenzyme Q binding site [chemical binding]; other site 634176004039 Predicted membrane protein [Function unknown]; Region: COG2510 634176004040 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 634176004041 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 634176004042 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 634176004043 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 634176004044 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 634176004045 catalytic site [active] 634176004046 G-X2-G-X-G-K; other site 634176004047 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 634176004048 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 634176004049 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 634176004050 Zn2+ binding site [ion binding]; other site 634176004051 Mg2+ binding site [ion binding]; other site 634176004052 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 634176004053 synthetase active site [active] 634176004054 NTP binding site [chemical binding]; other site 634176004055 metal binding site [ion binding]; metal-binding site 634176004056 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 634176004057 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 634176004058 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 634176004059 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 634176004060 generic binding surface II; other site 634176004061 ssDNA binding site; other site 634176004062 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 634176004063 ATP binding site [chemical binding]; other site 634176004064 putative Mg++ binding site [ion binding]; other site 634176004065 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 634176004066 nucleotide binding region [chemical binding]; other site 634176004067 ATP-binding site [chemical binding]; other site 634176004068 Chorismate lyase; Region: Chor_lyase; cl01230 634176004069 Uncharacterized conserved protein [Function unknown]; Region: COG2850 634176004070 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 634176004071 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 634176004072 generic binding surface II; other site 634176004073 generic binding surface I; other site 634176004074 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 634176004075 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 634176004076 active site 634176004077 phosphorylation site [posttranslational modification] 634176004078 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 634176004079 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 634176004080 Walker A/P-loop; other site 634176004081 ATP binding site [chemical binding]; other site 634176004082 Q-loop/lid; other site 634176004083 ABC transporter signature motif; other site 634176004084 Walker B; other site 634176004085 D-loop; other site 634176004086 H-loop/switch region; other site 634176004087 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 634176004088 OstA-like protein; Region: OstA; cl00844 634176004089 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 634176004090 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 634176004091 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 634176004092 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 634176004093 Walker A/P-loop; other site 634176004094 ATP binding site [chemical binding]; other site 634176004095 Q-loop/lid; other site 634176004096 ABC transporter signature motif; other site 634176004097 Walker B; other site 634176004098 D-loop; other site 634176004099 H-loop/switch region; other site 634176004100 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 634176004101 conserved hypothetical integral membrane protein; Region: TIGR00056 634176004102 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 634176004103 mce related protein; Region: MCE; pfam02470 634176004104 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 634176004105 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 634176004106 anti sigma factor interaction site; other site 634176004107 regulatory phosphorylation site [posttranslational modification]; other site 634176004108 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 634176004109 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 634176004110 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 634176004111 hinge; other site 634176004112 active site 634176004113 hypothetical protein; Provisional; Region: PRK05255 634176004114 peptidase PmbA; Provisional; Region: PRK11040 634176004115 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634176004116 active site 634176004117 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 634176004118 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 634176004119 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 634176004120 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 634176004121 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 634176004122 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 634176004123 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 634176004124 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 634176004125 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 634176004126 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 634176004127 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634176004128 Walker A/P-loop; other site 634176004129 ATP binding site [chemical binding]; other site 634176004130 Q-loop/lid; other site 634176004131 ABC transporter signature motif; other site 634176004132 Walker B; other site 634176004133 D-loop; other site 634176004134 H-loop/switch region; other site 634176004135 Phosphotransferase enzyme family; Region: APH; pfam01636 634176004136 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 634176004137 substrate binding site [chemical binding]; other site 634176004138 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 634176004139 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 634176004140 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 634176004141 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 634176004142 ATP binding site [chemical binding]; other site 634176004143 Mg++ binding site [ion binding]; other site 634176004144 motif III; other site 634176004145 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 634176004146 nucleotide binding region [chemical binding]; other site 634176004147 ATP-binding site [chemical binding]; other site 634176004148 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 634176004149 putative RNA binding site [nucleotide binding]; other site 634176004150 lipoprotein NlpI; Provisional; Region: PRK11189 634176004151 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 634176004152 binding surface 634176004153 TPR motif; other site 634176004154 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 634176004155 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 634176004156 RNase E interface [polypeptide binding]; other site 634176004157 trimer interface [polypeptide binding]; other site 634176004158 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 634176004159 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 634176004160 RNase E interface [polypeptide binding]; other site 634176004161 trimer interface [polypeptide binding]; other site 634176004162 active site 634176004163 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 634176004164 putative nucleic acid binding region [nucleotide binding]; other site 634176004165 G-X-X-G motif; other site 634176004166 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 634176004167 RNA binding site [nucleotide binding]; other site 634176004168 domain interface; other site 634176004169 Domain of unknown function (DUF386); Region: DUF386; pfam04074 634176004170 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 634176004171 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 634176004172 amidase catalytic site [active] 634176004173 Zn binding residues [ion binding]; other site 634176004174 substrate binding site [chemical binding]; other site 634176004175 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 634176004176 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 634176004177 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 634176004178 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 634176004179 Walker A motif; other site 634176004180 ATP binding site [chemical binding]; other site 634176004181 Walker B motif; other site 634176004182 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 634176004183 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 634176004184 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 634176004185 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 634176004186 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 634176004187 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 634176004188 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 634176004189 CoA-binding site [chemical binding]; other site 634176004190 ATP-binding [chemical binding]; other site 634176004191 DNA gyrase inhibitor; Reviewed; Region: PRK00418 634176004192 Predicted acetyltransferase [General function prediction only]; Region: COG2388 634176004193 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 634176004194 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 634176004195 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 634176004196 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 634176004197 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 634176004198 RIP homotypic interaction motif; Region: RHIM; pfam12721 634176004199 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 634176004200 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 634176004201 dimerization interface [polypeptide binding]; other site 634176004202 ATP binding site [chemical binding]; other site 634176004203 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 634176004204 dimerization interface [polypeptide binding]; other site 634176004205 ATP binding site [chemical binding]; other site 634176004206 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 634176004207 putative active site [active] 634176004208 catalytic triad [active] 634176004209 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 634176004210 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 634176004211 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 634176004212 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 634176004213 FMN binding site [chemical binding]; other site 634176004214 active site 634176004215 catalytic residues [active] 634176004216 substrate binding site [chemical binding]; other site 634176004217 ribosomal protein L11 methyltransferase; Region: prmA; TIGR00406 634176004218 Methyltransferase domain; Region: Methyltransf_18; pfam12847 634176004219 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 634176004220 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 634176004221 Na binding site [ion binding]; other site 634176004222 Predicted membrane protein [Function unknown]; Region: COG3924 634176004223 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 634176004224 TPR motif; other site 634176004225 binding surface 634176004226 Protein of unknown function (DUF560); Region: DUF560; pfam04575 634176004227 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 634176004228 active site 634176004229 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 634176004230 substrate binding site [chemical binding]; other site 634176004231 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 634176004232 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 634176004233 active site 634176004234 HIGH motif; other site 634176004235 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 634176004236 KMSKS motif; other site 634176004237 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 634176004238 tRNA binding surface [nucleotide binding]; other site 634176004239 anticodon binding site; other site 634176004240 lipoyl synthase; Provisional; Region: PRK05481 634176004241 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 634176004242 FeS/SAM binding site; other site 634176004243 lipoate-protein ligase B; Provisional; Region: PRK14342 634176004244 hypothetical protein; Provisional; Region: PRK04998 634176004245 rare lipoprotein A; Region: rlpA; TIGR00413 634176004246 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 634176004247 Sporulation related domain; Region: SPOR; cl10051 634176004248 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 634176004249 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 634176004250 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 634176004251 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 634176004252 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 634176004253 Oligomerisation domain; Region: Oligomerisation; cl00519 634176004254 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 634176004255 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 634176004256 ATP binding site [chemical binding]; other site 634176004257 Mg++ binding site [ion binding]; other site 634176004258 motif III; other site 634176004259 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 634176004260 nucleotide binding region [chemical binding]; other site 634176004261 ATP-binding site [chemical binding]; other site 634176004262 transcription termination factor Rho; Provisional; Region: rho; PRK09376 634176004263 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 634176004264 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 634176004265 RNA binding site [nucleotide binding]; other site 634176004266 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 634176004267 multimer interface [polypeptide binding]; other site 634176004268 Walker A motif; other site 634176004269 ATP binding site [chemical binding]; other site 634176004270 Walker B motif; other site 634176004271 benzoate transport; Region: 2A0115; TIGR00895 634176004272 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 634176004273 putative substrate translocation pore; other site 634176004274 acyl carrier protein; Provisional; Region: acpP; PRK00982 634176004275 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 634176004276 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 634176004277 NAD(P) binding site [chemical binding]; other site 634176004278 homotetramer interface [polypeptide binding]; other site 634176004279 homodimer interface [polypeptide binding]; other site 634176004280 active site 634176004281 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 634176004282 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 634176004283 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 634176004284 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 634176004285 dimer interface [polypeptide binding]; other site 634176004286 active site 634176004287 CoA binding pocket [chemical binding]; other site 634176004288 putative phosphate acyltransferase; Provisional; Region: PRK05331 634176004289 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 634176004290 hypothetical protein; Provisional; Region: PRK11193 634176004291 AAA domain; Region: AAA_26; pfam13500 634176004292 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 634176004293 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 634176004294 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 634176004295 S-adenosylmethionine binding site [chemical binding]; other site 634176004296 Protein of unknown function (DUF452); Region: DUF452; cl01062 634176004297 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 634176004298 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 634176004299 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 634176004300 substrate-cofactor binding pocket; other site 634176004301 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634176004302 catalytic residue [active] 634176004303 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 634176004304 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 634176004305 inhibitor-cofactor binding pocket; inhibition site 634176004306 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634176004307 catalytic residue [active] 634176004308 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 634176004309 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 634176004310 S-adenosylmethionine binding site [chemical binding]; other site 634176004311 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 634176004312 active site 634176004313 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 634176004314 active site 634176004315 catalytic residues [active] 634176004316 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 634176004317 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 634176004318 Putative methyltransferase; Region: Methyltransf_20; pfam12147 634176004319 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 634176004320 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 634176004321 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 634176004322 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 634176004323 gamma-glutamyl kinase; Provisional; Region: PRK05429 634176004324 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 634176004325 nucleotide binding site [chemical binding]; other site 634176004326 homotetrameric interface [polypeptide binding]; other site 634176004327 putative phosphate binding site [ion binding]; other site 634176004328 putative allosteric binding site; other site 634176004329 PUA domain; Region: PUA; pfam01472 634176004330 Uncharacterized conserved protein [Function unknown]; Region: COG2966 634176004331 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 634176004332 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 634176004333 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 634176004334 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 634176004335 folate binding site [chemical binding]; other site 634176004336 NADP+ binding site [chemical binding]; other site 634176004337 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 634176004338 Domain of unknown function DUF21; Region: DUF21; pfam01595 634176004339 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 634176004340 Transporter associated domain; Region: CorC_HlyC; smart01091 634176004341 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 634176004342 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 634176004343 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 634176004344 active site 634176004345 DNA polymerase III subunit delta'; Validated; Region: PRK06871 634176004346 DNA polymerase III subunit delta'; Validated; Region: PRK08485 634176004347 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 634176004348 thymidylate kinase; Validated; Region: tmk; PRK00698 634176004349 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 634176004350 TMP-binding site; other site 634176004351 ATP-binding site [chemical binding]; other site 634176004352 potential frameshift: common BLAST hit: gi|148827654|ref|YP_001292407.1| periplasmic solute-binding protein 634176004353 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 634176004354 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 634176004355 proteins similar to Escherichia coli yceG; Region: yceG_like; cl17666 634176004356 dimerization interface [polypeptide binding]; other site 634176004357 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 634176004358 Domain of unknown function DUF20; Region: UPF0118; pfam01594 634176004359 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 634176004360 Nitrogen regulatory protein P-II; Region: P-II; smart00938 634176004361 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 634176004362 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 634176004363 active site 634176004364 motif I; other site 634176004365 motif II; other site 634176004366 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 634176004367 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 634176004368 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 634176004369 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 634176004370 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 634176004371 putative active site [active] 634176004372 catalytic site [active] 634176004373 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 634176004374 MPT binding site; other site 634176004375 trimer interface [polypeptide binding]; other site 634176004376 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 634176004377 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 634176004378 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 634176004379 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 634176004380 putative acyl-acceptor binding pocket; other site 634176004381 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 634176004382 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 634176004383 transmembrane helices; other site 634176004384 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 634176004385 TrkA-C domain; Region: TrkA_C; pfam02080 634176004386 TrkA-C domain; Region: TrkA_C; pfam02080 634176004387 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 634176004388 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 634176004389 RNA/DNA hybrid binding site [nucleotide binding]; other site 634176004390 active site 634176004391 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 634176004392 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 634176004393 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 634176004394 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 634176004395 active site 634176004396 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 634176004397 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 634176004398 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 634176004399 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 634176004400 trimer interface [polypeptide binding]; other site 634176004401 active site 634176004402 UDP-GlcNAc binding site [chemical binding]; other site 634176004403 lipid binding site [chemical binding]; lipid-binding site 634176004404 periplasmic chaperone; Provisional; Region: PRK10780 634176004405 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 634176004406 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 634176004407 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 634176004408 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 634176004409 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 634176004410 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 634176004411 Surface antigen; Region: Bac_surface_Ag; pfam01103 634176004412 zinc metallopeptidase RseP; Provisional; Region: PRK10779 634176004413 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 634176004414 active site 634176004415 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 634176004416 protein binding site [polypeptide binding]; other site 634176004417 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 634176004418 protein binding site [polypeptide binding]; other site 634176004419 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 634176004420 putative substrate binding region [chemical binding]; other site 634176004421 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 634176004422 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 634176004423 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 634176004424 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 634176004425 catalytic residue [active] 634176004426 putative FPP diphosphate binding site; other site 634176004427 putative FPP binding hydrophobic cleft; other site 634176004428 dimer interface [polypeptide binding]; other site 634176004429 putative IPP diphosphate binding site; other site 634176004430 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 634176004431 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 634176004432 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 634176004433 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 634176004434 ribosome recycling factor; Reviewed; Region: frr; PRK00083 634176004435 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 634176004436 hinge region; other site 634176004437 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 634176004438 putative nucleotide binding site [chemical binding]; other site 634176004439 uridine monophosphate binding site [chemical binding]; other site 634176004440 homohexameric interface [polypeptide binding]; other site 634176004441 putative transporter; Validated; Region: PRK03818 634176004442 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 634176004443 TrkA-C domain; Region: TrkA_C; pfam02080 634176004444 TrkA-C domain; Region: TrkA_C; pfam02080 634176004445 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 634176004446 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 634176004447 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 634176004448 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 634176004449 2-isopropylmalate synthase; Validated; Region: PRK00915 634176004450 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 634176004451 active site 634176004452 catalytic residues [active] 634176004453 metal binding site [ion binding]; metal-binding site 634176004454 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 634176004455 tartrate dehydrogenase; Region: TTC; TIGR02089 634176004456 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 634176004457 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 634176004458 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 634176004459 substrate binding site [chemical binding]; other site 634176004460 ligand binding site [chemical binding]; other site 634176004461 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 634176004462 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 634176004463 substrate binding site [chemical binding]; other site 634176004464 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 634176004465 S-adenosylmethionine binding site [chemical binding]; other site 634176004466 aromatic amino acid transport protein; Region: araaP; TIGR00837 634176004467 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 634176004468 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 634176004469 dimer interface [polypeptide binding]; other site 634176004470 substrate binding site [chemical binding]; other site 634176004471 metal binding sites [ion binding]; metal-binding site 634176004472 Peptidase family M48; Region: Peptidase_M48; pfam01435 634176004473 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 634176004474 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 634176004475 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 634176004476 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 634176004477 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 634176004478 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 634176004479 Domain of unknown function DUF21; Region: DUF21; pfam01595 634176004480 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 634176004481 Transporter associated domain; Region: CorC_HlyC; smart01091 634176004482 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 634176004483 signal recognition particle protein; Provisional; Region: PRK10867 634176004484 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 634176004485 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 634176004486 P loop; other site 634176004487 GTP binding site [chemical binding]; other site 634176004488 Signal peptide binding domain; Region: SRP_SPB; pfam02978 634176004489 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 634176004490 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 634176004491 putative acyl-acceptor binding pocket; other site 634176004492 LexA repressor; Validated; Region: PRK00215 634176004493 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 634176004494 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 634176004495 Catalytic site [active] 634176004496 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 634176004497 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 634176004498 dimer interface [polypeptide binding]; other site 634176004499 ssDNA binding site [nucleotide binding]; other site 634176004500 tetramer (dimer of dimers) interface [polypeptide binding]; other site 634176004501 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 634176004502 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 634176004503 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 634176004504 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 634176004505 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 634176004506 DNA protecting protein DprA; Region: dprA; TIGR00732 634176004507 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 634176004508 S17 interaction site [polypeptide binding]; other site 634176004509 S8 interaction site; other site 634176004510 16S rRNA interaction site [nucleotide binding]; other site 634176004511 streptomycin interaction site [chemical binding]; other site 634176004512 23S rRNA interaction site [nucleotide binding]; other site 634176004513 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 634176004514 30S ribosomal protein S7; Validated; Region: PRK05302 634176004515 elongation factor G; Reviewed; Region: PRK00007 634176004516 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 634176004517 G1 box; other site 634176004518 putative GEF interaction site [polypeptide binding]; other site 634176004519 GTP/Mg2+ binding site [chemical binding]; other site 634176004520 Switch I region; other site 634176004521 G2 box; other site 634176004522 G3 box; other site 634176004523 Switch II region; other site 634176004524 G4 box; other site 634176004525 G5 box; other site 634176004526 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 634176004527 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 634176004528 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 634176004529 elongation factor Tu; Reviewed; Region: PRK00049 634176004530 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 634176004531 G1 box; other site 634176004532 GEF interaction site [polypeptide binding]; other site 634176004533 GTP/Mg2+ binding site [chemical binding]; other site 634176004534 Switch I region; other site 634176004535 G2 box; other site 634176004536 G3 box; other site 634176004537 Switch II region; other site 634176004538 G4 box; other site 634176004539 G5 box; other site 634176004540 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 634176004541 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 634176004542 Antibiotic Binding Site [chemical binding]; other site 634176004543 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 634176004544 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 634176004545 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 634176004546 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 634176004547 RNA binding site [nucleotide binding]; other site 634176004548 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 634176004549 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 634176004550 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 634176004551 Putative zinc-finger; Region: zf-HC2; pfam13490 634176004552 RNA polymerase sigma factor; Provisional; Region: PRK12530 634176004553 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 634176004554 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 634176004555 DNA binding residues [nucleotide binding] 634176004556 hypothetical protein; Provisional; Region: PRK11212 634176004557 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 634176004558 HemY protein N-terminus; Region: HemY_N; pfam07219 634176004559 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 634176004560 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 634176004561 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 634176004562 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 634176004563 active site 634176004564 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 634176004565 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 634176004566 domain interfaces; other site 634176004567 active site 634176004568 adenylate cyclase; Provisional; Region: cyaA; PRK09450 634176004569 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 634176004570 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 634176004571 transcriptional regulator NarP; Provisional; Region: PRK10403 634176004572 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 634176004573 active site 634176004574 phosphorylation site [posttranslational modification] 634176004575 intermolecular recognition site; other site 634176004576 dimerization interface [polypeptide binding]; other site 634176004577 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 634176004578 DNA binding residues [nucleotide binding] 634176004579 dimerization interface [polypeptide binding]; other site 634176004580 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 634176004581 Surface antigen; Region: Bac_surface_Ag; pfam01103 634176004582 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 634176004583 Family of unknown function (DUF490); Region: DUF490; pfam04357 634176004584 exopolyphosphatase; Provisional; Region: PRK10854 634176004585 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 634176004586 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 634176004587 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 634176004588 active site 634176004589 substrate-binding site [chemical binding]; other site 634176004590 metal-binding site [ion binding] 634176004591 ATP binding site [chemical binding]; other site 634176004592 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 634176004593 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 634176004594 Ligand Binding Site [chemical binding]; other site 634176004595 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 634176004596 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 634176004597 ApbE family; Region: ApbE; pfam02424 634176004598 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 634176004599 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 634176004600 FAD binding pocket [chemical binding]; other site 634176004601 FAD binding motif [chemical binding]; other site 634176004602 phosphate binding motif [ion binding]; other site 634176004603 beta-alpha-beta structure motif; other site 634176004604 NAD binding pocket [chemical binding]; other site 634176004605 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 634176004606 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 634176004607 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 634176004608 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 634176004609 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 634176004610 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 634176004611 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 634176004612 E3 interaction surface; other site 634176004613 lipoyl attachment site [posttranslational modification]; other site 634176004614 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 634176004615 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 634176004616 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG3056 634176004617 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 634176004618 murein transglycosylase C; Provisional; Region: mltC; PRK11671 634176004619 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 634176004620 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 634176004621 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634176004622 catalytic residue [active] 634176004623 oxidative damage protection protein; Provisional; Region: PRK05408 634176004624 adenine DNA glycosylase; Provisional; Region: PRK10880 634176004625 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 634176004626 minor groove reading motif; other site 634176004627 helix-hairpin-helix signature motif; other site 634176004628 substrate binding pocket [chemical binding]; other site 634176004629 active site 634176004630 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 634176004631 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 634176004632 DNA binding and oxoG recognition site [nucleotide binding] 634176004633 hypothetical protein; Provisional; Region: PRK11702 634176004634 potential frameshift: common BLAST hit: gi|52424449|ref|YP_087586.1| MdlB protein 634176004635 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634176004636 Walker A/P-loop; other site 634176004637 ATP binding site [chemical binding]; other site 634176004638 ABC transporter; Region: ABC_tran; pfam00005 634176004639 Q-loop/lid; other site 634176004640 ABC transporter signature motif; other site 634176004641 Walker B; other site 634176004642 D-loop; other site 634176004643 H-loop/switch region; other site 634176004644 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 634176004645 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 634176004646 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634176004647 Cupin; Region: Cupin_6; pfam12852 634176004648 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 634176004649 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634176004650 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 634176004651 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 634176004652 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 634176004653 putative active site [active] 634176004654 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 634176004655 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 634176004656 active site 634176004657 substrate binding site [chemical binding]; other site 634176004658 ATP binding site [chemical binding]; other site 634176004659 Protein of unknown function (DUF461); Region: DUF461; pfam04314 634176004660 putative lysogenization regulator; Reviewed; Region: PRK00218 634176004661 adenylosuccinate lyase; Provisional; Region: PRK09285 634176004662 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 634176004663 tetramer interface [polypeptide binding]; other site 634176004664 active site 634176004665 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 634176004666 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 634176004667 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 634176004668 Predicted ATPase [General function prediction only]; Region: COG4637 634176004669 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634176004670 Walker A/P-loop; other site 634176004671 ATP binding site [chemical binding]; other site 634176004672 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 634176004673 dimer interface [polypeptide binding]; other site 634176004674 conserved gate region; other site 634176004675 putative PBP binding loops; other site 634176004676 ABC-ATPase subunit interface; other site 634176004677 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 634176004678 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 634176004679 dimer interface [polypeptide binding]; other site 634176004680 conserved gate region; other site 634176004681 putative PBP binding loops; other site 634176004682 ABC-ATPase subunit interface; other site 634176004683 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 634176004684 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 634176004685 Walker A/P-loop; other site 634176004686 ATP binding site [chemical binding]; other site 634176004687 Q-loop/lid; other site 634176004688 ABC transporter signature motif; other site 634176004689 Walker B; other site 634176004690 D-loop; other site 634176004691 H-loop/switch region; other site 634176004692 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 634176004693 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 634176004694 FMN binding site [chemical binding]; other site 634176004695 active site 634176004696 catalytic residues [active] 634176004697 substrate binding site [chemical binding]; other site 634176004698 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 634176004699 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 634176004700 putative metal binding site [ion binding]; other site 634176004701 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 634176004702 HSP70 interaction site [polypeptide binding]; other site 634176004703 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634176004704 active site 634176004705 ribonuclease PH; Reviewed; Region: rph; PRK00173 634176004706 Ribonuclease PH; Region: RNase_PH_bact; cd11362 634176004707 hexamer interface [polypeptide binding]; other site 634176004708 active site 634176004709 hypothetical protein; Provisional; Region: PRK11820 634176004710 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 634176004711 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 634176004712 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 634176004713 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 634176004714 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 634176004715 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 634176004716 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 634176004717 active site 634176004718 nucleophile elbow; other site 634176004719 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 634176004720 SnoaL-like domain; Region: SnoaL_3; pfam13474 634176004721 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 634176004722 rRNA interaction site [nucleotide binding]; other site 634176004723 S8 interaction site; other site 634176004724 putative laminin-1 binding site; other site 634176004725 elongation factor Ts; Provisional; Region: tsf; PRK09377 634176004726 UBA/TS-N domain; Region: UBA; pfam00627 634176004727 Elongation factor TS; Region: EF_TS; pfam00889 634176004728 Elongation factor TS; Region: EF_TS; pfam00889 634176004729 DNA repair protein RecO; Region: reco; TIGR00613 634176004730 Recombination protein O N terminal; Region: RecO_N; pfam11967 634176004731 Recombination protein O C terminal; Region: RecO_C; pfam02565 634176004732 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 634176004733 TRAM domain; Region: TRAM; pfam01938 634176004734 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 634176004735 S-adenosylmethionine binding site [chemical binding]; other site 634176004736 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 634176004737 HD domain; Region: HD_4; pfam13328 634176004738 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 634176004739 synthetase active site [active] 634176004740 NTP binding site [chemical binding]; other site 634176004741 metal binding site [ion binding]; metal-binding site 634176004742 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 634176004743 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 634176004744 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 634176004745 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 634176004746 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 634176004747 motif II; other site 634176004748 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 634176004749 A new structural DNA glycosylase containing HEAT-like repeats; Region: AlkD_like_1; cd07064 634176004750 active site 634176004751 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 634176004752 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 634176004753 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 634176004754 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634176004755 Walker A/P-loop; other site 634176004756 ATP binding site [chemical binding]; other site 634176004757 Q-loop/lid; other site 634176004758 ABC transporter signature motif; other site 634176004759 Walker B; other site 634176004760 D-loop; other site 634176004761 H-loop/switch region; other site 634176004762 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 634176004763 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 634176004764 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 634176004765 P loop; other site 634176004766 GTP binding site [chemical binding]; other site 634176004767 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 634176004768 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 634176004769 S-adenosylmethionine binding site [chemical binding]; other site 634176004770 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 634176004771 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 634176004772 active pocket/dimerization site; other site 634176004773 active site 634176004774 phosphorylation site [posttranslational modification] 634176004775 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 634176004776 active site 634176004777 phosphorylation site [posttranslational modification] 634176004778 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 634176004779 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 634176004780 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 634176004781 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 634176004782 active site 634176004783 motif I; other site 634176004784 motif II; other site 634176004785 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 634176004786 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 634176004787 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 634176004788 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 634176004789 regulatory protein UhpC; Provisional; Region: PRK11663 634176004790 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 634176004791 putative substrate translocation pore; other site 634176004792 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 634176004793 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 634176004794 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 634176004795 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 634176004796 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 634176004797 ABC-ATPase subunit interface; other site 634176004798 dimer interface [polypeptide binding]; other site 634176004799 putative PBP binding regions; other site 634176004800 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 634176004801 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 634176004802 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 634176004803 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 634176004804 N-terminal plug; other site 634176004805 ligand-binding site [chemical binding]; other site 634176004806 N-glycosyltransferase; Provisional; Region: PRK11204 634176004807 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 634176004808 DXD motif; other site 634176004809 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 634176004810 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 634176004811 putative active site [active] 634176004812 putative metal binding site [ion binding]; other site 634176004813 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 634176004814 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 634176004815 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 634176004816 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 634176004817 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 634176004818 Nucleoside recognition; Region: Gate; pfam07670 634176004819 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 634176004820 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 634176004821 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 634176004822 putative active site [active] 634176004823 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 634176004824 Aspartase; Region: Aspartase; cd01357 634176004825 active sites [active] 634176004826 tetramer interface [polypeptide binding]; other site 634176004827 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 634176004828 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 634176004829 oligomerisation interface [polypeptide binding]; other site 634176004830 mobile loop; other site 634176004831 roof hairpin; other site 634176004832 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 634176004833 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 634176004834 ring oligomerisation interface [polypeptide binding]; other site 634176004835 ATP/Mg binding site [chemical binding]; other site 634176004836 stacking interactions; other site 634176004837 hinge regions; other site 634176004838 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 634176004839 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 634176004840 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 634176004841 homodimer interface [polypeptide binding]; other site 634176004842 NADP binding site [chemical binding]; other site 634176004843 substrate binding site [chemical binding]; other site 634176004844 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 634176004845 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 634176004846 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 634176004847 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 634176004848 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 634176004849 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 634176004850 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 634176004851 active site 634176004852 Int/Topo IB signature motif; other site 634176004853 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 634176004854 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 634176004855 motif II; other site 634176004856 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 634176004857 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 634176004858 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 634176004859 putative acyl-acceptor binding pocket; other site 634176004860 Phosphopantetheine attachment site; Region: PP-binding; cl09936 634176004861 acyl carrier protein; Provisional; Region: PRK05350 634176004862 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 634176004863 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 634176004864 AMP binding site [chemical binding]; other site 634176004865 active site 634176004866 acyl-activating enzyme (AAE) consensus motif; other site 634176004867 CoA binding site [chemical binding]; other site 634176004868 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 634176004869 active site 2 [active] 634176004870 active site 1 [active] 634176004871 Predicted membrane protein [Function unknown]; Region: COG4648 634176004872 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 634176004873 AMP-binding enzyme; Region: AMP-binding; pfam00501 634176004874 acyl-activating enzyme (AAE) consensus motif; other site 634176004875 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 634176004876 AMP binding site [chemical binding]; other site 634176004877 active site 634176004878 acyl-activating enzyme (AAE) consensus motif; other site 634176004879 CoA binding site [chemical binding]; other site 634176004880 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 634176004881 Ligand binding site; other site 634176004882 Putative Catalytic site; other site 634176004883 DXD motif; other site 634176004884 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 634176004885 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 634176004886 putative acyl-acceptor binding pocket; other site 634176004887 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 634176004888 active site 634176004889 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 634176004890 Predicted exporter [General function prediction only]; Region: COG4258 634176004891 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 634176004892 potential frameshift: common BLAST hit: gi|170718535|ref|YP_001783744.1| tryptophan halogenase 634176004893 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 634176004894 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 634176004895 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 634176004896 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 634176004897 dimer interface [polypeptide binding]; other site 634176004898 active site 634176004899 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 634176004900 putative active site 1 [active] 634176004901 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 634176004902 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 634176004903 NAD(P) binding site [chemical binding]; other site 634176004904 homotetramer interface [polypeptide binding]; other site 634176004905 homodimer interface [polypeptide binding]; other site 634176004906 active site 634176004907 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 634176004908 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 634176004909 dimer interface [polypeptide binding]; other site 634176004910 active site 634176004911 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 634176004912 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 634176004913 domain interface [polypeptide binding]; other site 634176004914 putative active site [active] 634176004915 catalytic site [active] 634176004916 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 634176004917 domain interface [polypeptide binding]; other site 634176004918 putative active site [active] 634176004919 catalytic site [active] 634176004920 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 634176004921 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 634176004922 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 634176004923 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 634176004924 Ribonuclease I [Translation, ribosomal structure and biogenesis]; Region: Rna; COG3719 634176004925 CAS motifs; other site 634176004926 active site 634176004927 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 634176004928 Phosphoglycerate kinase; Region: PGK; pfam00162 634176004929 substrate binding site [chemical binding]; other site 634176004930 hinge regions; other site 634176004931 ADP binding site [chemical binding]; other site 634176004932 catalytic site [active] 634176004933 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 634176004934 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 634176004935 active site 634176004936 intersubunit interface [polypeptide binding]; other site 634176004937 zinc binding site [ion binding]; other site 634176004938 Na+ binding site [ion binding]; other site 634176004939 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 634176004940 O-Antigen ligase; Region: Wzy_C; pfam04932 634176004941 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 634176004942 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 634176004943 chromosome condensation membrane protein; Provisional; Region: PRK14196 634176004944 putative hydrolase; Provisional; Region: PRK10976 634176004945 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 634176004946 active site 634176004947 motif I; other site 634176004948 motif II; other site 634176004949 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 634176004950 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 634176004951 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 634176004952 PYR/PP interface [polypeptide binding]; other site 634176004953 dimer interface [polypeptide binding]; other site 634176004954 TPP binding site [chemical binding]; other site 634176004955 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 634176004956 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 634176004957 TPP-binding site [chemical binding]; other site 634176004958 dimer interface [polypeptide binding]; other site 634176004959 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 634176004960 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 634176004961 threonine dehydratase; Reviewed; Region: PRK09224 634176004962 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 634176004963 tetramer interface [polypeptide binding]; other site 634176004964 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634176004965 catalytic residue [active] 634176004966 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 634176004967 putative Ile/Val binding site [chemical binding]; other site 634176004968 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 634176004969 putative Ile/Val binding site [chemical binding]; other site 634176004970 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 634176004971 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 634176004972 dimer interface [polypeptide binding]; other site 634176004973 active site 634176004974 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 634176004975 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 634176004976 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634176004977 Walker A/P-loop; other site 634176004978 ATP binding site [chemical binding]; other site 634176004979 Q-loop/lid; other site 634176004980 ABC transporter signature motif; other site 634176004981 Walker B; other site 634176004982 D-loop; other site 634176004983 H-loop/switch region; other site 634176004984 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 634176004985 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 634176004986 Phosphopantetheine attachment site; Region: PP-binding; cl09936 634176004987 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 634176004988 active site 634176004989 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 634176004990 potential protein location (cell wall-associated hydrolase [Aggregatibacter aphrophilus NJ8700]) that overlaps RNA (23S ribosomal RNA) 634176004991 protoporphyrinogen oxidase; Provisional; Region: hemG; PRK11104 634176004992 Cation transport protein; Region: TrkH; cl17365 634176004993 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 634176004994 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 634176004995 CPxP motif; other site 634176004996 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 634176004997 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 634176004998 non-specific DNA binding site [nucleotide binding]; other site 634176004999 salt bridge; other site 634176005000 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 634176005001 sequence-specific DNA binding site [nucleotide binding]; other site 634176005002 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 634176005003 active site 634176005004 (T/H)XGH motif; other site 634176005005 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 634176005006 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 634176005007 active site 634176005008 metal binding site [ion binding]; metal-binding site 634176005009 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 634176005010 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 634176005011 aromatic amino acid transport protein; Region: araaP; TIGR00837 634176005012 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 634176005013 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 634176005014 Clp amino terminal domain; Region: Clp_N; pfam02861 634176005015 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 634176005016 Walker A motif; other site 634176005017 ATP binding site [chemical binding]; other site 634176005018 Walker B motif; other site 634176005019 arginine finger; other site 634176005020 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 634176005021 Walker A motif; other site 634176005022 ATP binding site [chemical binding]; other site 634176005023 Walker B motif; other site 634176005024 arginine finger; other site 634176005025 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 634176005026 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 634176005027 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 634176005028 dimerization interface [polypeptide binding]; other site 634176005029 putative ATP binding site [chemical binding]; other site 634176005030 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 634176005031 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 634176005032 active site 634176005033 substrate binding site [chemical binding]; other site 634176005034 cosubstrate binding site; other site 634176005035 catalytic site [active] 634176005036 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 634176005037 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 634176005038 active site 634176005039 motif I; other site 634176005040 motif II; other site 634176005041 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 634176005042 DNA utilization protein GntX; Provisional; Region: PRK11595 634176005043 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634176005044 active site 634176005045 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 634176005046 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 634176005047 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 634176005048 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 634176005049 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 634176005050 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 634176005051 metal binding site [ion binding]; metal-binding site 634176005052 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 634176005053 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 634176005054 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 634176005055 substrate binding site [chemical binding]; other site 634176005056 glutamase interaction surface [polypeptide binding]; other site 634176005057 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 634176005058 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 634176005059 catalytic residues [active] 634176005060 Transposase IS200 like; Region: Y1_Tnp; pfam01797 634176005061 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 634176005062 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 634176005063 putative active site [active] 634176005064 oxyanion strand; other site 634176005065 catalytic triad [active] 634176005066 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 634176005067 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 634176005068 active site 634176005069 motif I; other site 634176005070 motif II; other site 634176005071 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 634176005072 putative active site pocket [active] 634176005073 4-fold oligomerization interface [polypeptide binding]; other site 634176005074 metal binding residues [ion binding]; metal-binding site 634176005075 3-fold/trimer interface [polypeptide binding]; other site 634176005076 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 634176005077 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 634176005078 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634176005079 homodimer interface [polypeptide binding]; other site 634176005080 catalytic residue [active] 634176005081 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 634176005082 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 634176005083 NAD binding site [chemical binding]; other site 634176005084 dimerization interface [polypeptide binding]; other site 634176005085 product binding site; other site 634176005086 substrate binding site [chemical binding]; other site 634176005087 zinc binding site [ion binding]; other site 634176005088 catalytic residues [active] 634176005089 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 634176005090 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 634176005091 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 634176005092 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 634176005093 CTP synthetase; Validated; Region: pyrG; PRK05380 634176005094 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 634176005095 Catalytic site [active] 634176005096 active site 634176005097 UTP binding site [chemical binding]; other site 634176005098 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 634176005099 active site 634176005100 putative oxyanion hole; other site 634176005101 catalytic triad [active] 634176005102 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 634176005103 thiamine phosphate binding site [chemical binding]; other site 634176005104 active site 634176005105 pyrophosphate binding site [ion binding]; other site 634176005106 enolase; Provisional; Region: eno; PRK00077 634176005107 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 634176005108 dimer interface [polypeptide binding]; other site 634176005109 metal binding site [ion binding]; metal-binding site 634176005110 substrate binding pocket [chemical binding]; other site 634176005111 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 634176005112 hypothetical protein; Validated; Region: PRK00228 634176005113 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 634176005114 RNA methyltransferase, RsmE family; Region: TIGR00046 634176005115 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 634176005116 dimerization interface [polypeptide binding]; other site 634176005117 DNA binding site [nucleotide binding] 634176005118 corepressor binding sites; other site 634176005119 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 634176005120 active site 634176005121 tetramer interface; other site 634176005122 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 634176005123 carbon storage regulator; Provisional; Region: PRK01712 634176005124 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 634176005125 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 634176005126 motif 1; other site 634176005127 active site 634176005128 motif 2; other site 634176005129 motif 3; other site 634176005130 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 634176005131 DHHA1 domain; Region: DHHA1; pfam02272 634176005132 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 634176005133 Ligand Binding Site [chemical binding]; other site 634176005134 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 634176005135 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 634176005136 homodimer interface [polypeptide binding]; other site 634176005137 metal binding site [ion binding]; metal-binding site 634176005138 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 634176005139 homodimer interface [polypeptide binding]; other site 634176005140 active site 634176005141 putative chemical substrate binding site [chemical binding]; other site 634176005142 metal binding site [ion binding]; metal-binding site 634176005143 hypothetical protein; Validated; Region: PRK06886 634176005144 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 634176005145 active site 634176005146 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 634176005147 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 634176005148 Sulfatase; Region: Sulfatase; cl17466 634176005149 hypothetical protein; Provisional; Region: PRK13689 634176005150 Nucleoid-associated protein [General function prediction only]; Region: COG3081 634176005151 nucleoid-associated protein NdpA; Validated; Region: PRK00378 634176005152 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 634176005153 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 634176005154 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 634176005155 active site 634176005156 phosphorylation site [posttranslational modification] 634176005157 intermolecular recognition site; other site 634176005158 dimerization interface [polypeptide binding]; other site 634176005159 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 634176005160 DNA binding site [nucleotide binding] 634176005161 two-component sensor protein; Provisional; Region: cpxA; PRK09470 634176005162 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 634176005163 dimerization interface [polypeptide binding]; other site 634176005164 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 634176005165 ATP binding site [chemical binding]; other site 634176005166 Mg2+ binding site [ion binding]; other site 634176005167 G-X-G motif; other site 634176005168 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 634176005169 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 634176005170 putative active site [active] 634176005171 dimerization interface [polypeptide binding]; other site 634176005172 putative tRNAtyr binding site [nucleotide binding]; other site 634176005173 hypothetical protein; Reviewed; Region: PRK01637 634176005174 hypothetical protein; Provisional; Region: PRK01752 634176005175 SEC-C motif; Region: SEC-C; pfam02810 634176005176 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 634176005177 MOSC domain; Region: MOSC; pfam03473 634176005178 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 634176005179 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 634176005180 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 634176005181 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 634176005182 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 634176005183 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 634176005184 glutaminase active site [active] 634176005185 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 634176005186 dimer interface [polypeptide binding]; other site 634176005187 active site 634176005188 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 634176005189 dimer interface [polypeptide binding]; other site 634176005190 active site 634176005191 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 634176005192 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 634176005193 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 634176005194 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 634176005195 IHF dimer interface [polypeptide binding]; other site 634176005196 IHF - DNA interface [nucleotide binding]; other site 634176005197 Protein of unknown function (DUF416); Region: DUF416; cl01166 634176005198 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 634176005199 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 634176005200 substrate binding site [chemical binding]; other site 634176005201 active site 634176005202 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 634176005203 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 634176005204 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 634176005205 putative NADH binding site [chemical binding]; other site 634176005206 putative active site [active] 634176005207 nudix motif; other site 634176005208 putative metal binding site [ion binding]; other site 634176005209 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 634176005210 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 634176005211 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 634176005212 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 634176005213 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 634176005214 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 634176005215 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 634176005216 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 634176005217 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 634176005218 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 634176005219 DNA binding site [nucleotide binding] 634176005220 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 634176005221 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 634176005222 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 634176005223 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 634176005224 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 634176005225 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 634176005226 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 634176005227 RPB1 interaction site [polypeptide binding]; other site 634176005228 RPB11 interaction site [polypeptide binding]; other site 634176005229 RPB10 interaction site [polypeptide binding]; other site 634176005230 RPB3 interaction site [polypeptide binding]; other site 634176005231 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 634176005232 core dimer interface [polypeptide binding]; other site 634176005233 peripheral dimer interface [polypeptide binding]; other site 634176005234 L10 interface [polypeptide binding]; other site 634176005235 L11 interface [polypeptide binding]; other site 634176005236 putative EF-Tu interaction site [polypeptide binding]; other site 634176005237 putative EF-G interaction site [polypeptide binding]; other site 634176005238 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 634176005239 23S rRNA interface [nucleotide binding]; other site 634176005240 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 634176005241 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 634176005242 mRNA/rRNA interface [nucleotide binding]; other site 634176005243 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 634176005244 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 634176005245 23S rRNA interface [nucleotide binding]; other site 634176005246 L7/L12 interface [polypeptide binding]; other site 634176005247 putative thiostrepton binding site; other site 634176005248 L25 interface [polypeptide binding]; other site 634176005249 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 634176005250 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 634176005251 putative homodimer interface [polypeptide binding]; other site 634176005252 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 634176005253 heterodimer interface [polypeptide binding]; other site 634176005254 homodimer interface [polypeptide binding]; other site 634176005255 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 634176005256 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 634176005257 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 634176005258 non-specific DNA binding site [nucleotide binding]; other site 634176005259 salt bridge; other site 634176005260 sequence-specific DNA binding site [nucleotide binding]; other site 634176005261 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 634176005262 Ash protein family; Region: Phage_ASH; pfam10554 634176005263 AntA/AntB antirepressor; Region: AntA; cl01430 634176005264 Terminase small subunit; Region: Terminase_2; cl01513 634176005265 Helix-turn-helix domain; Region: HTH_39; pfam14090 634176005266 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 634176005267 Homeodomain-like domain; Region: HTH_32; pfam13565 634176005268 integrase; Provisional; Region: PRK09692 634176005269 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 634176005270 active site 634176005271 Int/Topo IB signature motif; other site 634176005272 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 634176005273 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 634176005274 TPR motif; other site 634176005275 binding surface 634176005276 Uncharacterized conserved protein [Function unknown]; Region: COG1434 634176005277 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 634176005278 putative active site [active] 634176005279 Fic family protein [Function unknown]; Region: COG3177 634176005280 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 634176005281 Fic/DOC family; Region: Fic; pfam02661 634176005282 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 634176005283 Methyltransferase domain; Region: Methyltransf_26; pfam13659 634176005284 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 634176005285 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 634176005286 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 634176005287 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 634176005288 MutS domain I; Region: MutS_I; pfam01624 634176005289 MutS domain II; Region: MutS_II; pfam05188 634176005290 MutS domain III; Region: MutS_III; pfam05192 634176005291 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 634176005292 Walker A/P-loop; other site 634176005293 ATP binding site [chemical binding]; other site 634176005294 Q-loop/lid; other site 634176005295 ABC transporter signature motif; other site 634176005296 Walker B; other site 634176005297 D-loop; other site 634176005298 H-loop/switch region; other site 634176005299 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 634176005300 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 634176005301 ATP binding site [chemical binding]; other site 634176005302 Mg++ binding site [ion binding]; other site 634176005303 motif III; other site 634176005304 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 634176005305 nucleotide binding region [chemical binding]; other site 634176005306 ATP-binding site [chemical binding]; other site 634176005307 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 634176005308 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 634176005309 S-adenosylmethionine binding site [chemical binding]; other site 634176005310 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 634176005311 ATP-dependent helicase HepA; Validated; Region: PRK04914 634176005312 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 634176005313 ATP binding site [chemical binding]; other site 634176005314 putative Mg++ binding site [ion binding]; other site 634176005315 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 634176005316 nucleotide binding region [chemical binding]; other site 634176005317 ATP-binding site [chemical binding]; other site 634176005318 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 634176005319 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 634176005320 active site 634176005321 Protein of unknown function (DUF770); Region: DUF770; pfam05591 634176005322 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 634176005323 Protein of unknown function (DUF877); Region: DUF877; pfam05943 634176005324 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 634176005325 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 634176005326 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 634176005327 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 634176005328 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 634176005329 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 634176005330 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 634176005331 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 634176005332 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 634176005333 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 634176005334 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 634176005335 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 634176005336 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 634176005337 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 634176005338 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 634176005339 catalytic triad [active] 634176005340 putative active site [active] 634176005341 Autotransporter beta-domain; Region: Autotransporter; smart00869 634176005342 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK01792 634176005343 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 634176005344 Membrane transport protein; Region: Mem_trans; cl09117 634176005345 Domain of unknown function (DUF4424); Region: DUF4424; pfam14415 634176005346 DNA polymerase IV; Validated; Region: PRK03352 634176005347 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 634176005348 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 634176005349 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 634176005350 active site 634176005351 P-loop; other site 634176005352 phosphorylation site [posttranslational modification] 634176005353 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 634176005354 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 634176005355 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 634176005356 putative substrate binding site [chemical binding]; other site 634176005357 putative ATP binding site [chemical binding]; other site 634176005358 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK13779 634176005359 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 634176005360 active site 634176005361 phosphorylation site [posttranslational modification] 634176005362 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 634176005363 dimerization domain swap beta strand [polypeptide binding]; other site 634176005364 regulatory protein interface [polypeptide binding]; other site 634176005365 active site 634176005366 regulatory phosphorylation site [posttranslational modification]; other site 634176005367 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 634176005368 dimerization domain swap beta strand [polypeptide binding]; other site 634176005369 regulatory protein interface [polypeptide binding]; other site 634176005370 active site 634176005371 regulatory phosphorylation site [posttranslational modification]; other site 634176005372 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 634176005373 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 634176005374 GTP binding site; other site 634176005375 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 634176005376 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 634176005377 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 634176005378 catalytic residues [active] 634176005379 hinge region; other site 634176005380 alpha helical domain; other site 634176005381 hypothetical protein; Provisional; Region: PRK11027 634176005382 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 634176005383 Putative SAM-dependent methyltransferase; Region: SAM_MT; pfam04445 634176005384 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 634176005385 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 634176005386 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 634176005387 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 634176005388 putative active site [active] 634176005389 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 634176005390 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 634176005391 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 634176005392 Substrate binding site; other site 634176005393 Mg++ binding site; other site 634176005394 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 634176005395 active site 634176005396 substrate binding site [chemical binding]; other site 634176005397 CoA binding site [chemical binding]; other site 634176005398 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 634176005399 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 634176005400 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 634176005401 homodimer interface [polypeptide binding]; other site 634176005402 substrate-cofactor binding pocket; other site 634176005403 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634176005404 catalytic residue [active] 634176005405 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 634176005406 Cupin domain; Region: Cupin_2; cl17218 634176005407 DNA polymerase I; Provisional; Region: PRK05755 634176005408 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 634176005409 active site 634176005410 metal binding site 1 [ion binding]; metal-binding site 634176005411 putative 5' ssDNA interaction site; other site 634176005412 metal binding site 3; metal-binding site 634176005413 metal binding site 2 [ion binding]; metal-binding site 634176005414 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 634176005415 putative DNA binding site [nucleotide binding]; other site 634176005416 putative metal binding site [ion binding]; other site 634176005417 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 634176005418 active site 634176005419 catalytic site [active] 634176005420 substrate binding site [chemical binding]; other site 634176005421 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 634176005422 active site 634176005423 DNA binding site [nucleotide binding] 634176005424 catalytic site [active] 634176005425 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 634176005426 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 634176005427 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 634176005428 Part of AAA domain; Region: AAA_19; pfam13245 634176005429 Family description; Region: UvrD_C_2; pfam13538 634176005430 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 634176005431 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 634176005432 motif II; other site 634176005433 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 634176005434 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 634176005435 active site 634176005436 substrate binding site [chemical binding]; other site 634176005437 trimer interface [polypeptide binding]; other site 634176005438 CoA binding site [chemical binding]; other site 634176005439 Predicted membrane protein [Function unknown]; Region: COG1238 634176005440 S-ribosylhomocysteinase; Provisional; Region: PRK02260 634176005441 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 634176005442 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 634176005443 ATP-grasp domain; Region: ATP-grasp; pfam02222 634176005444 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 634176005445 Patatin-like phospholipase; Region: Patatin; pfam01734 634176005446 active site 634176005447 nucleophile elbow; other site 634176005448 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 634176005449 intersubunit interface [polypeptide binding]; other site 634176005450 active site 634176005451 catalytic residue [active] 634176005452 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 634176005453 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 634176005454 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 634176005455 Mg chelatase-related protein; Region: TIGR00368 634176005456 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 634176005457 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 634176005458 Walker A motif; other site 634176005459 ATP binding site [chemical binding]; other site 634176005460 Walker B motif; other site 634176005461 arginine finger; other site 634176005462 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 634176005463 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 634176005464 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 634176005465 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 634176005466 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 634176005467 TPR motif; other site 634176005468 binding surface 634176005469 Sel1-like repeats; Region: SEL1; smart00671 634176005470 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 634176005471 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 634176005472 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 634176005473 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 634176005474 NodB motif; other site 634176005475 putative active site [active] 634176005476 putative catalytic site [active] 634176005477 Zn binding site [ion binding]; other site 634176005478 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 634176005479 Peptidase family M23; Region: Peptidase_M23; pfam01551 634176005480 Protein of unknown function (DUF808); Region: DUF808; cl01002 634176005481 potential protein location (cell wall-associated hydrolase [Aggregatibacter aphrophilus NJ8700]) that overlaps RNA (23S ribosomal RNA) 634176005482 transaldolase-like protein; Provisional; Region: PTZ00411 634176005483 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 634176005484 active site 634176005485 dimer interface [polypeptide binding]; other site 634176005486 catalytic residue [active] 634176005487 transketolase; Reviewed; Region: PRK12753 634176005488 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 634176005489 TPP-binding site [chemical binding]; other site 634176005490 dimer interface [polypeptide binding]; other site 634176005491 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 634176005492 PYR/PP interface [polypeptide binding]; other site 634176005493 dimer interface [polypeptide binding]; other site 634176005494 TPP binding site [chemical binding]; other site 634176005495 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 634176005496 lysozyme inhibitor; Provisional; Region: PRK13791 634176005497 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 634176005498 homotrimer interaction site [polypeptide binding]; other site 634176005499 putative active site [active] 634176005500 recombination regulator RecX; Reviewed; Region: recX; PRK00117 634176005501 recombinase A; Provisional; Region: recA; PRK09354 634176005502 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 634176005503 hexamer interface [polypeptide binding]; other site 634176005504 Walker A motif; other site 634176005505 ATP binding site [chemical binding]; other site 634176005506 Walker B motif; other site 634176005507 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 634176005508 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634176005509 Walker A/P-loop; other site 634176005510 ATP binding site [chemical binding]; other site 634176005511 Q-loop/lid; other site 634176005512 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634176005513 ABC transporter; Region: ABC_tran_2; pfam12848 634176005514 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 634176005515 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 634176005516 LysE type translocator; Region: LysE; cl00565 634176005517 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 634176005518 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 634176005519 non-specific DNA binding site [nucleotide binding]; other site 634176005520 salt bridge; other site 634176005521 sequence-specific DNA binding site [nucleotide binding]; other site 634176005522 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 634176005523 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 634176005524 active site 634176005525 HIGH motif; other site 634176005526 dimer interface [polypeptide binding]; other site 634176005527 KMSKS motif; other site 634176005528 phosphoglycolate phosphatase; Provisional; Region: PRK13222 634176005529 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 634176005530 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 634176005531 motif II; other site 634176005532 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 634176005533 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 634176005534 substrate binding site [chemical binding]; other site 634176005535 hexamer interface [polypeptide binding]; other site 634176005536 metal binding site [ion binding]; metal-binding site 634176005537 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 634176005538 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 634176005539 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 634176005540 substrate binding site; other site 634176005541 dimer interface; other site 634176005542 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 634176005543 homotrimer interaction site [polypeptide binding]; other site 634176005544 zinc binding site [ion binding]; other site 634176005545 CDP-binding sites; other site 634176005546 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 634176005547 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 634176005548 Permutation of conserved domain; other site 634176005549 active site 634176005550 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 634176005551 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 634176005552 Predicted membrane protein [Function unknown]; Region: COG1238 634176005553 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 634176005554 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 634176005555 Peptidase family M23; Region: Peptidase_M23; pfam01551 634176005556 EthD domain; Region: EthD; cl17553 634176005557 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 634176005558 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 634176005559 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 634176005560 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 634176005561 DNA binding residues [nucleotide binding] 634176005562 putative transporter; Provisional; Region: PRK10504 634176005563 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 634176005564 putative substrate translocation pore; other site 634176005565 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 634176005566 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 634176005567 Walker A motif; other site 634176005568 Positive regulator of sigma E activity [Signal transduction mechanisms]; Region: RseC; COG3086 634176005569 anti-sigma E factor; Provisional; Region: rseB; PRK09455 634176005570 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 634176005571 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 634176005572 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 634176005573 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 634176005574 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 634176005575 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 634176005576 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 634176005577 DNA binding residues [nucleotide binding] 634176005578 Uncharacterized conserved protein [Function unknown]; Region: COG2938 634176005579 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 634176005580 prolyl-tRNA synthetase; Provisional; Region: PRK09194 634176005581 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 634176005582 dimer interface [polypeptide binding]; other site 634176005583 motif 1; other site 634176005584 active site 634176005585 motif 2; other site 634176005586 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 634176005587 putative deacylase active site [active] 634176005588 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 634176005589 active site 634176005590 motif 3; other site 634176005591 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 634176005592 anticodon binding site; other site 634176005593 selenocysteine synthase; Provisional; Region: PRK04311 634176005594 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 634176005595 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 634176005596 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 634176005597 catalytic residue [active] 634176005598 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 634176005599 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 634176005600 G1 box; other site 634176005601 putative GEF interaction site [polypeptide binding]; other site 634176005602 GTP/Mg2+ binding site [chemical binding]; other site 634176005603 Switch I region; other site 634176005604 G2 box; other site 634176005605 G3 box; other site 634176005606 Switch II region; other site 634176005607 G4 box; other site 634176005608 G5 box; other site 634176005609 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 634176005610 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 634176005611 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 634176005612 DEP domain, named after Dishevelled, Egl-10, and Pleckstrin, where this domain was first discovered. The function of this domain is still not clear, but it is believed to be important for the membrane association of the signaling proteins in which it is...; Region: DEP; cl02442 634176005613 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 634176005614 Regulator of replication initiation timing [Replication, recombination, and repair]; Region: COG4467; cl01853 634176005615 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 634176005616 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 634176005617 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 634176005618 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 634176005619 putative active site [active] 634176005620 putative FMN binding site [chemical binding]; other site 634176005621 putative substrate binding site [chemical binding]; other site 634176005622 putative catalytic residue [active] 634176005623 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 634176005624 MgtC family; Region: MgtC; pfam02308 634176005625 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 634176005626 pseudouridine synthase; Region: TIGR00093 634176005627 active site 634176005628 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 634176005629 Na2 binding site [ion binding]; other site 634176005630 putative substrate binding site 1 [chemical binding]; other site 634176005631 Na binding site 1 [ion binding]; other site 634176005632 putative substrate binding site 2 [chemical binding]; other site 634176005633 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 634176005634 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 634176005635 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634176005636 Walker A/P-loop; other site 634176005637 ATP binding site [chemical binding]; other site 634176005638 Q-loop/lid; other site 634176005639 ABC transporter signature motif; other site 634176005640 Walker B; other site 634176005641 D-loop; other site 634176005642 H-loop/switch region; other site 634176005643 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 634176005644 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 634176005645 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 634176005646 Walker A/P-loop; other site 634176005647 ATP binding site [chemical binding]; other site 634176005648 Q-loop/lid; other site 634176005649 ABC transporter signature motif; other site 634176005650 Walker B; other site 634176005651 D-loop; other site 634176005652 H-loop/switch region; other site 634176005653 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 634176005654 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 634176005655 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 634176005656 active site residue [active] 634176005657 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 634176005658 SecA binding site; other site 634176005659 Preprotein binding site; other site 634176005660 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 634176005661 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 634176005662 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 634176005663 serine acetyltransferase; Provisional; Region: cysE; PRK11132 634176005664 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 634176005665 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 634176005666 trimer interface [polypeptide binding]; other site 634176005667 active site 634176005668 substrate binding site [chemical binding]; other site 634176005669 CoA binding site [chemical binding]; other site 634176005670 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 634176005671 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 634176005672 putative active site [active] 634176005673 Protein of unknown function (DUF904); Region: DUF904; pfam06005 634176005674 FMN-binding protein MioC; Provisional; Region: PRK09004 634176005675 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 634176005676 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 634176005677 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 634176005678 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 634176005679 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 634176005680 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 634176005681 F0F1 ATP synthase subunit I; Validated; Region: PRK06099 634176005682 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 634176005683 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 634176005684 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 634176005685 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 634176005686 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 634176005687 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 634176005688 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 634176005689 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 634176005690 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 634176005691 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 634176005692 beta subunit interaction interface [polypeptide binding]; other site 634176005693 Walker A motif; other site 634176005694 ATP binding site [chemical binding]; other site 634176005695 Walker B motif; other site 634176005696 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 634176005697 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 634176005698 core domain interface [polypeptide binding]; other site 634176005699 delta subunit interface [polypeptide binding]; other site 634176005700 epsilon subunit interface [polypeptide binding]; other site 634176005701 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 634176005702 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 634176005703 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 634176005704 alpha subunit interaction interface [polypeptide binding]; other site 634176005705 Walker A motif; other site 634176005706 ATP binding site [chemical binding]; other site 634176005707 Walker B motif; other site 634176005708 inhibitor binding site; inhibition site 634176005709 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 634176005710 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 634176005711 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 634176005712 gamma subunit interface [polypeptide binding]; other site 634176005713 epsilon subunit interface [polypeptide binding]; other site 634176005714 LBP interface [polypeptide binding]; other site 634176005715 YcxB-like protein; Region: YcxB; pfam14317 634176005716 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 634176005717 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 634176005718 putative active site [active] 634176005719 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 634176005720 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 634176005721 NADP binding site [chemical binding]; other site 634176005722 homopentamer interface [polypeptide binding]; other site 634176005723 substrate binding site [chemical binding]; other site 634176005724 active site 634176005725 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 634176005726 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 634176005727 active site 634176005728 metal binding site [ion binding]; metal-binding site 634176005729 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 634176005730 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 634176005731 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634176005732 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 634176005733 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634176005734 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 634176005735 dimerization interface [polypeptide binding]; other site 634176005736 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 634176005737 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 634176005738 catalytic triad [active] 634176005739 dimer interface [polypeptide binding]; other site 634176005740 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 634176005741 GSH binding site [chemical binding]; other site 634176005742 catalytic residues [active] 634176005743 bifunctional glutathionylspermidine amidase/glutathionylspermidine synthetase; Provisional; Region: PRK10507 634176005744 CHAP domain; Region: CHAP; pfam05257 634176005745 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 634176005746 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 634176005747 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 634176005748 Nitrate reductase cytochrome c-type subunit [Energy production and conversion]; Region: NapB; COG3043 634176005749 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 634176005750 4Fe-4S binding domain; Region: Fer4_5; pfam12801 634176005751 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 634176005752 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 634176005753 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 634176005754 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 634176005755 [4Fe-4S] binding site [ion binding]; other site 634176005756 molybdopterin cofactor binding site; other site 634176005757 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 634176005758 molybdopterin cofactor binding site; other site 634176005759 NapD protein; Region: NapD; cl01163 634176005760 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 634176005761 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 634176005762 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 634176005763 dimerization interface [polypeptide binding]; other site 634176005764 Histidine kinase; Region: HisKA_3; pfam07730 634176005765 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 634176005766 ATP binding site [chemical binding]; other site 634176005767 Mg2+ binding site [ion binding]; other site 634176005768 G-X-G motif; other site 634176005769 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 634176005770 FAD binding domain; Region: FAD_binding_4; pfam01565 634176005771 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 634176005772 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 634176005773 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 634176005774 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 634176005775 gating phenylalanine in ion channel; other site 634176005776 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 634176005777 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 634176005778 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 634176005779 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 634176005780 DNA binding residues [nucleotide binding] 634176005781 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 634176005782 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 634176005783 metal binding site [ion binding]; metal-binding site 634176005784 dimer interface [polypeptide binding]; other site 634176005785 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634176005786 active site 634176005787 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 634176005788 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 634176005789 phosphate binding site [ion binding]; other site 634176005790 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 634176005791 OstA-like protein; Region: OstA; pfam03968 634176005792 Organic solvent tolerance protein; Region: OstA_C; pfam04453 634176005793 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 634176005794 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 634176005795 diaminopimelate decarboxylase; Region: lysA; TIGR01048 634176005796 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 634176005797 active site 634176005798 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 634176005799 substrate binding site [chemical binding]; other site 634176005800 catalytic residues [active] 634176005801 dimer interface [polypeptide binding]; other site 634176005802 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 634176005803 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 634176005804 putative iron binding site [ion binding]; other site 634176005805 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 634176005806 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 634176005807 ATP binding site [chemical binding]; other site 634176005808 putative Mg++ binding site [ion binding]; other site 634176005809 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 634176005810 nucleotide binding region [chemical binding]; other site 634176005811 ATP-binding site [chemical binding]; other site 634176005812 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 634176005813 Helicase and RNase D C-terminal; Region: HRDC; smart00341 634176005814 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 634176005815 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 634176005816 ATP binding site [chemical binding]; other site 634176005817 Mg2+ binding site [ion binding]; other site 634176005818 G-X-G motif; other site 634176005819 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 634176005820 anchoring element; other site 634176005821 dimer interface [polypeptide binding]; other site 634176005822 ATP binding site [chemical binding]; other site 634176005823 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 634176005824 active site 634176005825 putative metal-binding site [ion binding]; other site 634176005826 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 634176005827 pantothenate kinase; Provisional; Region: PRK05439 634176005828 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 634176005829 ATP-binding site [chemical binding]; other site 634176005830 CoA-binding site [chemical binding]; other site 634176005831 Mg2+-binding site [ion binding]; other site 634176005832 elongation factor Tu; Reviewed; Region: PRK00049 634176005833 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 634176005834 G1 box; other site 634176005835 GEF interaction site [polypeptide binding]; other site 634176005836 GTP/Mg2+ binding site [chemical binding]; other site 634176005837 Switch I region; other site 634176005838 G2 box; other site 634176005839 G3 box; other site 634176005840 Switch II region; other site 634176005841 G4 box; other site 634176005842 G5 box; other site 634176005843 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 634176005844 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 634176005845 Antibiotic Binding Site [chemical binding]; other site 634176005846 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 634176005847 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 634176005848 Walker A/P-loop; other site 634176005849 ATP binding site [chemical binding]; other site 634176005850 Q-loop/lid; other site 634176005851 ABC transporter signature motif; other site 634176005852 Walker B; other site 634176005853 D-loop; other site 634176005854 H-loop/switch region; other site 634176005855 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 634176005856 dimer interface [polypeptide binding]; other site 634176005857 conserved gate region; other site 634176005858 putative PBP binding loops; other site 634176005859 ABC-ATPase subunit interface; other site 634176005860 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 634176005861 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 634176005862 substrate binding pocket [chemical binding]; other site 634176005863 membrane-bound complex binding site; other site 634176005864 hinge residues; other site 634176005865 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 634176005866 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 634176005867 hypothetical protein; Provisional; Region: PRK02119 634176005868 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 634176005869 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 634176005870 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 634176005871 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 634176005872 YheO-like PAS domain; Region: PAS_6; pfam08348 634176005873 HTH domain; Region: HTH_22; pfam13309 634176005874 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 634176005875 sulfur relay protein TusC/DsrF; Region: sulf_tusC_dsrF; TIGR03010 634176005876 DsrH like protein; Region: DsrH; cl17347 634176005877 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 634176005878 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 634176005879 PAS domain; Region: PAS_9; pfam13426 634176005880 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 634176005881 putative active site [active] 634176005882 heme pocket [chemical binding]; other site 634176005883 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 634176005884 Flavodoxin; Region: Flavodoxin_1; pfam00258 634176005885 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 634176005886 FAD binding pocket [chemical binding]; other site 634176005887 conserved FAD binding motif [chemical binding]; other site 634176005888 phosphate binding motif [ion binding]; other site 634176005889 beta-alpha-beta structure motif; other site 634176005890 NAD binding pocket [chemical binding]; other site 634176005891 hypothetical protein; Provisional; Region: PRK10695 634176005892 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 634176005893 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 634176005894 dimer interface [polypeptide binding]; other site 634176005895 FMN binding site [chemical binding]; other site 634176005896 Protein of unknown function, DUF606; Region: DUF606; cl01273 634176005897 Protein of unknown function, DUF606; Region: DUF606; pfam04657 634176005898 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 634176005899 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 634176005900 Macro domain, Unknown family 1. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases)...; Region: Macro_1; cd02906 634176005901 putative ADP-ribose binding site [chemical binding]; other site 634176005902 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 634176005903 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 634176005904 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 634176005905 NADP binding site [chemical binding]; other site 634176005906 Predicted transcriptional regulators [Transcription]; Region: COG1733 634176005907 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 634176005908 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 634176005909 dimer interface [polypeptide binding]; other site 634176005910 motif 1; other site 634176005911 active site 634176005912 motif 2; other site 634176005913 motif 3; other site 634176005914 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 634176005915 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 634176005916 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 634176005917 catalytic core [active] 634176005918 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 634176005919 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 634176005920 DALR anticodon binding domain; Region: DALR_1; pfam05746 634176005921 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 634176005922 dimer interface [polypeptide binding]; other site 634176005923 allosteric magnesium binding site [ion binding]; other site 634176005924 active site 634176005925 aspartate-rich active site metal binding site; other site 634176005926 Schiff base residues; other site 634176005927 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 634176005928 sec-independent translocase; Provisional; Region: PRK01770 634176005929 twin arginine translocase protein A; Provisional; Region: tatA; PRK01833 634176005930 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 634176005931 SCP-2 sterol transfer family; Region: SCP2; pfam02036 634176005932 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 634176005933 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 634176005934 S-adenosylmethionine binding site [chemical binding]; other site 634176005935 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 634176005936 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 634176005937 dimerization interface [polypeptide binding]; other site 634176005938 domain crossover interface; other site 634176005939 redox-dependent activation switch; other site 634176005940 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 634176005941 RNA binding surface [nucleotide binding]; other site 634176005942 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 634176005943 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 634176005944 motif II; other site 634176005945 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 634176005946 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 634176005947 ADP-ribose binding site [chemical binding]; other site 634176005948 dimer interface [polypeptide binding]; other site 634176005949 active site 634176005950 nudix motif; other site 634176005951 metal binding site [ion binding]; metal-binding site 634176005952 Cupin; Region: Cupin_6; pfam12852 634176005953 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634176005954 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 634176005955 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 634176005956 Predicted membrane protein [Function unknown]; Region: COG3059 634176005957 Predicted membrane protein [Function unknown]; Region: COG1297 634176005958 putative oligopeptide transporter, OPT family; Region: TIGR00733 634176005959 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 634176005960 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 634176005961 active site 634176005962 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 634176005963 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 634176005964 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 634176005965 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 634176005966 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 634176005967 putative active site [active] 634176005968 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 634176005969 Coenzyme A binding pocket [chemical binding]; other site 634176005970 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 634176005971 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 634176005972 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 634176005973 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 634176005974 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 634176005975 UbiA prenyltransferase family; Region: UbiA; pfam01040 634176005976 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 634176005977 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 634176005978 UbiA prenyltransferase family; Region: UbiA; pfam01040 634176005979 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 634176005980 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 634176005981 N-terminal plug; other site 634176005982 ligand-binding site [chemical binding]; other site 634176005983 acid phosphatase/phosphotransferase; Provisional; Region: aphA; PRK11009 634176005984 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 634176005985 active site 634176005986 HslU subunit interaction site [polypeptide binding]; other site 634176005987 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 634176005988 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 634176005989 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 634176005990 Walker A motif; other site 634176005991 ATP binding site [chemical binding]; other site 634176005992 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 634176005993 Walker B motif; other site 634176005994 arginine finger; other site 634176005995 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 634176005996 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 634176005997 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 634176005998 substrate binding site [chemical binding]; other site 634176005999 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 634176006000 hypothetical protein; Validated; Region: PRK05445 634176006001 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 634176006002 catalytic core [active] 634176006003 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 634176006004 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 634176006005 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 634176006006 active site 634176006007 substrate binding site [chemical binding]; other site 634176006008 metal binding site [ion binding]; metal-binding site 634176006009 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 634176006010 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 634176006011 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 634176006012 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 634176006013 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 634176006014 PAAR motif; Region: PAAR_motif; pfam05488 634176006015 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 634176006016 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 634176006017 Walker A motif; other site 634176006018 ATP binding site [chemical binding]; other site 634176006019 Walker B motif; other site 634176006020 arginine finger; other site 634176006021 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 634176006022 Walker A motif; other site 634176006023 ATP binding site [chemical binding]; other site 634176006024 Walker B motif; other site 634176006025 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 634176006026 G1 box; other site 634176006027 GTP/Mg2+ binding site [chemical binding]; other site 634176006028 Switch I region; other site 634176006029 G2 box; other site 634176006030 G3 box; other site 634176006031 Switch II region; other site 634176006032 G4 box; other site 634176006033 G5 box; other site 634176006034 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VirK; COG2990 634176006035 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 634176006036 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 634176006037 substrate binding site [chemical binding]; other site 634176006038 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 634176006039 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 634176006040 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 634176006041 dimer interface [polypeptide binding]; other site 634176006042 conserved gate region; other site 634176006043 ABC-ATPase subunit interface; other site 634176006044 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 634176006045 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 634176006046 Walker A/P-loop; other site 634176006047 ATP binding site [chemical binding]; other site 634176006048 Q-loop/lid; other site 634176006049 ABC transporter signature motif; other site 634176006050 Walker B; other site 634176006051 D-loop; other site 634176006052 H-loop/switch region; other site 634176006053 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 634176006054 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 634176006055 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 634176006056 active site 634176006057 motif I; other site 634176006058 motif II; other site 634176006059 potential protein location (cell wall-associated hydrolase [Aggregatibacter aphrophilus NJ8700]) that overlaps RNA (23S ribosomal RNA) 634176006060 potential protein location (conserved hypothetical protein [Aggregatibacter aphrophilus NJ8700]) that overlaps RNA (5S ribosomal RNA) 634176006061 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 634176006062 active site 634176006063 catalytic residues [active] 634176006064 metal binding site [ion binding]; metal-binding site 634176006065 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 634176006066 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 634176006067 putative active site [active] 634176006068 substrate binding site [chemical binding]; other site 634176006069 putative cosubstrate binding site; other site 634176006070 catalytic site [active] 634176006071 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 634176006072 substrate binding site [chemical binding]; other site 634176006073 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 634176006074 TrkA-N domain; Region: TrkA_N; pfam02254 634176006075 TrkA-C domain; Region: TrkA_C; pfam02080 634176006076 TrkA-N domain; Region: TrkA_N; pfam02254 634176006077 TrkA-C domain; Region: TrkA_C; pfam02080 634176006078 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 634176006079 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 634176006080 RNase E inhibitor protein; Provisional; Region: PRK11191 634176006081 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 634176006082 Protein of unknown function (DUF541); Region: SIMPL; cl01077 634176006083 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 634176006084 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 634176006085 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 634176006086 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 634176006087 Low molecular weight phosphatase family; Region: LMWPc; cd00115 634176006088 active site 634176006089 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 634176006090 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 634176006091 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 634176006092 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 634176006093 FeS/SAM binding site; other site 634176006094 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 634176006095 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 634176006096 ArsC family; Region: ArsC; pfam03960 634176006097 catalytic residues [active] 634176006098 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 634176006099 Domain of unknown function DUF20; Region: UPF0118; pfam01594 634176006100 uridine phosphorylase; Provisional; Region: PRK11178 634176006101 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 634176006102 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 634176006103 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 634176006104 putative DNA binding site [nucleotide binding]; other site 634176006105 putative Zn2+ binding site [ion binding]; other site 634176006106 AsnC family; Region: AsnC_trans_reg; pfam01037 634176006107 Asparagine synthetase A [Amino acid transport and metabolism]; Region: AsnA; COG2502 634176006108 active site 634176006109 dimer interface [polypeptide binding]; other site 634176006110 motif 2; other site 634176006111 motif 3; other site 634176006112 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 634176006113 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 634176006114 FMN binding site [chemical binding]; other site 634176006115 active site 634176006116 catalytic residues [active] 634176006117 substrate binding site [chemical binding]; other site 634176006118 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 634176006119 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 634176006120 putative ion selectivity filter; other site 634176006121 putative pore gating glutamate residue; other site 634176006122 putative H+/Cl- coupling transport residue; other site 634176006123 ornithine carbamoyltransferase; Provisional; Region: PRK01713 634176006124 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 634176006125 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 634176006126 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 634176006127 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 634176006128 putative substrate binding site [chemical binding]; other site 634176006129 nucleotide binding site [chemical binding]; other site 634176006130 nucleotide binding site [chemical binding]; other site 634176006131 homodimer interface [polypeptide binding]; other site 634176006132 Predicted membrane protein [Function unknown]; Region: COG1288 634176006133 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 634176006134 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 634176006135 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 634176006136 dimerization interface [polypeptide binding]; other site 634176006137 putative DNA binding site [nucleotide binding]; other site 634176006138 putative Zn2+ binding site [ion binding]; other site 634176006139 AsnC family; Region: AsnC_trans_reg; pfam01037 634176006140 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 634176006141 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 634176006142 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 634176006143 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 634176006144 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 634176006145 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 634176006146 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 634176006147 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 634176006148 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 634176006149 protein-rRNA interface [nucleotide binding]; other site 634176006150 putative translocon binding site; other site 634176006151 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 634176006152 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 634176006153 G-X-X-G motif; other site 634176006154 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 634176006155 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 634176006156 23S rRNA interface [nucleotide binding]; other site 634176006157 5S rRNA interface [nucleotide binding]; other site 634176006158 putative antibiotic binding site [chemical binding]; other site 634176006159 L25 interface [polypeptide binding]; other site 634176006160 L27 interface [polypeptide binding]; other site 634176006161 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 634176006162 23S rRNA interface [nucleotide binding]; other site 634176006163 putative translocon interaction site; other site 634176006164 signal recognition particle (SRP54) interaction site; other site 634176006165 L23 interface [polypeptide binding]; other site 634176006166 trigger factor interaction site; other site 634176006167 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 634176006168 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 634176006169 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 634176006170 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 634176006171 RNA binding site [nucleotide binding]; other site 634176006172 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 634176006173 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 634176006174 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 634176006175 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 634176006176 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 634176006177 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 634176006178 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 634176006179 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 634176006180 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 634176006181 5S rRNA interface [nucleotide binding]; other site 634176006182 L27 interface [polypeptide binding]; other site 634176006183 23S rRNA interface [nucleotide binding]; other site 634176006184 L5 interface [polypeptide binding]; other site 634176006185 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 634176006186 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 634176006187 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 634176006188 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 634176006189 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 634176006190 SecY translocase; Region: SecY; pfam00344 634176006191 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 634176006192 30S ribosomal protein S13; Region: bact_S13; TIGR03631 634176006193 30S ribosomal protein S11; Validated; Region: PRK05309 634176006194 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 634176006195 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 634176006196 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 634176006197 RNA binding surface [nucleotide binding]; other site 634176006198 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 634176006199 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 634176006200 alphaNTD homodimer interface [polypeptide binding]; other site 634176006201 alphaNTD - beta interaction site [polypeptide binding]; other site 634176006202 alphaNTD - beta' interaction site [polypeptide binding]; other site 634176006203 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 634176006204 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 634176006205 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 634176006206 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 634176006207 putative metal binding site; other site 634176006208 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 634176006209 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 634176006210 Glycosyl transferases group 1; Region: Glycos_transf_1; pfam00534 634176006211 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 634176006212 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 634176006213 active site 634176006214 (T/H)XGH motif; other site 634176006215 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 634176006216 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 634176006217 active site 634176006218 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 634176006219 SurA N-terminal domain; Region: SurA_N; pfam09312 634176006220 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 634176006221 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 634176006222 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 634176006223 bis(5'-nucleosyl)-tetraphosphatase (symmetrical); Region: apaH; TIGR00668 634176006224 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 634176006225 active site 634176006226 metal binding site [ion binding]; metal-binding site 634176006227 Predicted acetyltransferase [General function prediction only]; Region: COG3981 634176006228 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 634176006229 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 634176006230 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 634176006231 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 634176006232 HIGH motif; other site 634176006233 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 634176006234 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 634176006235 active site 634176006236 KMSKS motif; other site 634176006237 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 634176006238 tRNA binding surface [nucleotide binding]; other site 634176006239 Rare lipoprotein B [Cell envelope biogenesis, outer membrane]; Region: RlpB; COG2980 634176006240 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 634176006241 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 634176006242 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 634176006243 active site 634176006244 8-oxo-dGMP binding site [chemical binding]; other site 634176006245 nudix motif; other site 634176006246 metal binding site [ion binding]; metal-binding site 634176006247 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 634176006248 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 634176006249 SEC-C motif; Region: SEC-C; pfam02810 634176006250 Protein of unknown function (DUF2547); Region: DUF2547; pfam10818 634176006251 Protein of unknown function (DUF721); Region: DUF721; cl02324 634176006252 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 634176006253 DNA binding residues [nucleotide binding] 634176006254 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 634176006255 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 634176006256 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 634176006257 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 634176006258 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 634176006259 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 634176006260 dimer interface [polypeptide binding]; other site 634176006261 ssDNA binding site [nucleotide binding]; other site 634176006262 tetramer (dimer of dimers) interface [polypeptide binding]; other site 634176006263 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 634176006264 trimer interface [polypeptide binding]; other site 634176006265 active site 634176006266 substrate binding site [chemical binding]; other site 634176006267 CoA binding site [chemical binding]; other site 634176006268 Uncharacterized conserved protein [Function unknown]; Region: COG4925 634176006269 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 634176006270 Transcriptional regulator [Transcription]; Region: LysR; COG0583 634176006271 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634176006272 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 634176006273 putative effector binding pocket; other site 634176006274 dimerization interface [polypeptide binding]; other site 634176006275 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 634176006276 active site 634176006277 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 634176006278 Ligand Binding Site [chemical binding]; other site 634176006279 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 634176006280 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 634176006281 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 634176006282 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 634176006283 putative active site [active] 634176006284 metal binding site [ion binding]; metal-binding site 634176006285 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 634176006286 active site residue [active] 634176006287 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 634176006288 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 634176006289 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 634176006290 active site 634176006291 dimer interface [polypeptide binding]; other site 634176006292 metal binding site [ion binding]; metal-binding site 634176006293 shikimate kinase; Reviewed; Region: aroK; PRK00131 634176006294 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 634176006295 ADP binding site [chemical binding]; other site 634176006296 magnesium binding site [ion binding]; other site 634176006297 putative shikimate binding site; other site 634176006298 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 634176006299 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 634176006300 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 634176006301 Competence protein A; Region: Competence_A; pfam11104 634176006302 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 634176006303 glutathione reductase; Validated; Region: PRK06116 634176006304 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 634176006305 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 634176006306 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 634176006307 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 634176006308 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 634176006309 ligand binding site [chemical binding]; other site 634176006310 flexible hinge region; other site 634176006311 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 634176006312 putative switch regulator; other site 634176006313 non-specific DNA interactions [nucleotide binding]; other site 634176006314 DNA binding site [nucleotide binding] 634176006315 sequence specific DNA binding site [nucleotide binding]; other site 634176006316 putative cAMP binding site [chemical binding]; other site 634176006317 hypothetical protein; Provisional; Region: PRK04966 634176006318 division inhibitor protein; Provisional; Region: slmA; PRK09480 634176006319 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634176006320 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 634176006321 trimer interface [polypeptide binding]; other site 634176006322 active site 634176006323 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 634176006324 Flavoprotein; Region: Flavoprotein; pfam02441 634176006325 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 634176006326 hypothetical protein; Reviewed; Region: PRK00024 634176006327 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 634176006328 MPN+ (JAMM) motif; other site 634176006329 Zinc-binding site [ion binding]; other site 634176006330 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 634176006331 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 634176006332 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 634176006333 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 634176006334 DNA binding site [nucleotide binding] 634176006335 catalytic residue [active] 634176006336 H2TH interface [polypeptide binding]; other site 634176006337 putative catalytic residues [active] 634176006338 turnover-facilitating residue; other site 634176006339 intercalation triad [nucleotide binding]; other site 634176006340 8OG recognition residue [nucleotide binding]; other site 634176006341 putative reading head residues; other site 634176006342 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 634176006343 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 634176006344 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 634176006345 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 634176006346 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 634176006347 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 634176006348 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 634176006349 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 634176006350 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 634176006351 Capsular polysaccharide synthesis protein; Region: Caps_synth; pfam05704 634176006352 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 634176006353 active site 634176006354 metal-binding site 634176006355 thiamine kinase; Region: ycfN_thiK; TIGR02721 634176006356 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 634176006357 active site 634176006358 ATP binding site [chemical binding]; other site 634176006359 substrate binding site [chemical binding]; other site 634176006360 dimer interface [polypeptide binding]; other site 634176006361 primosome assembly protein PriA; Validated; Region: PRK05580 634176006362 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 634176006363 ATP binding site [chemical binding]; other site 634176006364 putative Mg++ binding site [ion binding]; other site 634176006365 helicase superfamily c-terminal domain; Region: HELICc; smart00490 634176006366 Sporulation related domain; Region: SPOR; pfam05036 634176006367 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 634176006368 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 634176006369 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 634176006370 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 634176006371 HlyD family secretion protein; Region: HlyD_3; pfam13437 634176006372 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 634176006373 Methyltransferase domain; Region: Methyltransf_31; pfam13847 634176006374 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 634176006375 S-adenosylmethionine binding site [chemical binding]; other site 634176006376 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 634176006377 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 634176006378 Cl binding site [ion binding]; other site 634176006379 oligomer interface [polypeptide binding]; other site 634176006380 YGGT family; Region: YGGT; pfam02325 634176006381 Predicted integral membrane protein [Function unknown]; Region: COG0762 634176006382 hypothetical protein; Validated; Region: PRK05090 634176006383 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 634176006384 dimer interface [polypeptide binding]; other site 634176006385 FMN binding site [chemical binding]; other site 634176006386 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 634176006387 Sulfatase; Region: Sulfatase; pfam00884 634176006388 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 634176006389 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 634176006390 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 634176006391 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 634176006392 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 634176006393 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 634176006394 RNA binding surface [nucleotide binding]; other site 634176006395 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 634176006396 active site 634176006397 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 634176006398 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 634176006399 binding surface 634176006400 TPR motif; other site 634176006401 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 634176006402 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 634176006403 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 634176006404 hypothetical protein; Reviewed; Region: PRK01736 634176006405 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 634176006406 proline aminopeptidase P II; Provisional; Region: PRK10879 634176006407 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 634176006408 active site 634176006409 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 634176006410 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 634176006411 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 634176006412 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 634176006413 RimM N-terminal domain; Region: RimM; pfam01782 634176006414 PRC-barrel domain; Region: PRC; pfam05239 634176006415 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 634176006416 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 634176006417 rod shape-determining protein MreD; Region: MreD; cl01087 634176006418 rod shape-determining protein MreC; Region: mreC; TIGR00219 634176006419 rod shape-determining protein MreC; Region: MreC; pfam04085 634176006420 rod shape-determining protein MreB; Provisional; Region: PRK13927 634176006421 MreB and similar proteins; Region: MreB_like; cd10225 634176006422 nucleotide binding site [chemical binding]; other site 634176006423 Mg binding site [ion binding]; other site 634176006424 putative protofilament interaction site [polypeptide binding]; other site 634176006425 RodZ interaction site [polypeptide binding]; other site 634176006426 ribonuclease R; Region: RNase_R; TIGR02063 634176006427 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 634176006428 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 634176006429 RNB domain; Region: RNB; pfam00773 634176006430 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 634176006431 RNA binding site [nucleotide binding]; other site 634176006432 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 634176006433 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 634176006434 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 634176006435 glycerol-3-phosphate transporter; Region: glpT; TIGR00712 634176006436 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 634176006437 putative substrate translocation pore; other site 634176006438 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 634176006439 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 634176006440 active site 634176006441 catalytic site [active] 634176006442 metal binding site [ion binding]; metal-binding site 634176006443 ketol-acid reductoisomerase; Validated; Region: PRK05225 634176006444 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 634176006445 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 634176006446 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 634176006447 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 634176006448 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 634176006449 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 634176006450 dimerization interface [polypeptide binding]; other site 634176006451 Predicted permeases [General function prediction only]; Region: RarD; COG2962 634176006452 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 634176006453 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 634176006454 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 634176006455 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 634176006456 shikimate binding site; other site 634176006457 NAD(P) binding site [chemical binding]; other site 634176006458 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 634176006459 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 634176006460 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 634176006461 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 634176006462 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 634176006463 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 634176006464 RmuC family; Region: RmuC; pfam02646 634176006465 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 634176006466 active site residue [active] 634176006467 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 634176006468 Rhomboid family; Region: Rhomboid; pfam01694 634176006469 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 634176006470 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 634176006471 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 634176006472 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 634176006473 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 634176006474 D5 N terminal like; Region: D5_N; smart00885 634176006475 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 634176006476 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 634176006477 DNA binding site [nucleotide binding] 634176006478 active site 634176006479 Int/Topo IB signature motif; other site 634176006480 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 634176006481 D5 N terminal like; Region: D5_N; pfam08706 634176006482 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 634176006483 Ash protein family; Region: Phage_ASH; pfam10554 634176006484 Helix-turn-helix domain; Region: HTH_17; pfam12728 634176006485 Mor transcription activator family; Region: Mor; cl02360 634176006486 integrase; Provisional; Region: PRK09692 634176006487 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 634176006488 active site 634176006489 Int/Topo IB signature motif; other site 634176006490 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 634176006491 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 634176006492 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 634176006493 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 634176006494 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 634176006495 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 634176006496 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 634176006497 DNA binding residues [nucleotide binding] 634176006498 DNA primase; Validated; Region: dnaG; PRK05667 634176006499 CHC2 zinc finger; Region: zf-CHC2; pfam01807 634176006500 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 634176006501 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 634176006502 active site 634176006503 metal binding site [ion binding]; metal-binding site 634176006504 interdomain interaction site; other site 634176006505 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 634176006506 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 634176006507 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 634176006508 UGMP family protein; Validated; Region: PRK09604 634176006509 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 634176006510 thymidine kinase; Provisional; Region: PRK04296 634176006511 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 634176006512 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 634176006513 nucleotide binding pocket [chemical binding]; other site 634176006514 K-X-D-G motif; other site 634176006515 catalytic site [active] 634176006516 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 634176006517 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 634176006518 Helix-hairpin-helix motif; Region: HHH; pfam00633 634176006519 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 634176006520 Dimer interface [polypeptide binding]; other site 634176006521 BRCT sequence motif; other site 634176006522 cell division protein ZipA; Provisional; Region: PRK01741 634176006523 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 634176006524 FtsZ protein binding site [polypeptide binding]; other site 634176006525 putative sulfate transport protein CysZ; Validated; Region: PRK04949 634176006526 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 634176006527 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 634176006528 dimer interface [polypeptide binding]; other site 634176006529 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634176006530 catalytic residue [active] 634176006531 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 634176006532 putative uracil binding site [chemical binding]; other site 634176006533 putative active site [active] 634176006534 GTP-binding protein YchF; Reviewed; Region: PRK09601 634176006535 YchF GTPase; Region: YchF; cd01900 634176006536 G1 box; other site 634176006537 GTP/Mg2+ binding site [chemical binding]; other site 634176006538 Switch I region; other site 634176006539 G2 box; other site 634176006540 Switch II region; other site 634176006541 G3 box; other site 634176006542 G4 box; other site 634176006543 G5 box; other site 634176006544 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 634176006545 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 634176006546 putative active site [active] 634176006547 catalytic residue [active] 634176006548 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 634176006549 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cl00723 634176006550 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 634176006551 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 634176006552 motif II; other site 634176006553 Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]; Region: AhpA; COG3726 634176006554 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 634176006555 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 634176006556 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 634176006557 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 634176006558 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 634176006559 active site 634176006560 Riboflavin kinase; Region: Flavokinase; smart00904 634176006561 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 634176006562 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 634176006563 active site 634176006564 HIGH motif; other site 634176006565 nucleotide binding site [chemical binding]; other site 634176006566 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 634176006567 active site 634176006568 KMSKS motif; other site 634176006569 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 634176006570 tRNA binding surface [nucleotide binding]; other site 634176006571 anticodon binding site; other site 634176006572 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 634176006573 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 634176006574 lipoprotein signal peptidase; Provisional; Region: PRK14787 634176006575 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 634176006576 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 634176006577 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 634176006578 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 634176006579 active site 634176006580 dimerization interface [polypeptide binding]; other site 634176006581 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 634176006582 HemN family oxidoreductase; Provisional; Region: PRK05660 634176006583 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 634176006584 FeS/SAM binding site; other site 634176006585 HemN C-terminal domain; Region: HemN_C; pfam06969 634176006586 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 634176006587 tetramer (dimer of dimers) interface [polypeptide binding]; other site 634176006588 active site 634176006589 dimer interface [polypeptide binding]; other site 634176006590 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 634176006591 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 634176006592 ligand binding site [chemical binding]; other site 634176006593 NAD binding site [chemical binding]; other site 634176006594 tetramer interface [polypeptide binding]; other site 634176006595 catalytic site [active] 634176006596 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 634176006597 L-serine binding site [chemical binding]; other site 634176006598 ACT domain interface; other site 634176006599 Predicted metalloprotease [General function prediction only]; Region: COG2321 634176006600 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 634176006601 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 634176006602 BON domain; Region: BON; pfam04972 634176006603 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 634176006604 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 634176006605 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 634176006606 homooctamer interface [polypeptide binding]; other site 634176006607 active site 634176006608 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 634176006609 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 634176006610 substrate binding pocket [chemical binding]; other site 634176006611 membrane-bound complex binding site; other site 634176006612 hinge residues; other site 634176006613 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 634176006614 N-acetyl-D-glucosamine binding site [chemical binding]; other site 634176006615 catalytic residue [active] 634176006616 disulfide bond formation protein B; Provisional; Region: PRK01749 634176006617 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 634176006618 fatty acid metabolism regulator; Provisional; Region: PRK04984 634176006619 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 634176006620 DNA-binding site [nucleotide binding]; DNA binding site 634176006621 FadR C-terminal domain; Region: FadR_C; pfam07840 634176006622 aminotransferase AlaT; Validated; Region: PRK09265 634176006623 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 634176006624 pyridoxal 5'-phosphate binding site [chemical binding]; other site 634176006625 homodimer interface [polypeptide binding]; other site 634176006626 catalytic residue [active] 634176006627 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 634176006628 chorismate binding enzyme; Region: Chorismate_bind; cl10555 634176006629 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 634176006630 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 634176006631 dimer interface [polypeptide binding]; other site 634176006632 tetramer interface [polypeptide binding]; other site 634176006633 PYR/PP interface [polypeptide binding]; other site 634176006634 TPP binding site [chemical binding]; other site 634176006635 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 634176006636 TPP-binding site; other site 634176006637 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 634176006638 Putative serine esterase (DUF676); Region: DUF676; pfam05057 634176006639 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 634176006640 16S/18S rRNA binding site [nucleotide binding]; other site 634176006641 S13e-L30e interaction site [polypeptide binding]; other site 634176006642 25S rRNA binding site [nucleotide binding]; other site 634176006643 S-adenosylmethionine synthetase; Validated; Region: PRK05250 634176006644 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 634176006645 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 634176006646 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 634176006647 hypothetical protein; Provisional; Region: PRK04860 634176006648 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 634176006649 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 634176006650 serine transporter; Region: stp; TIGR00814 634176006651 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 634176006652 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 634176006653 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 634176006654 conjugal transfer protein TrbH; Provisional; Region: PRK13883