-- dump date 20140619_000912 -- class Genbank::misc_feature -- table misc_feature_note -- id note 696125000001 PEP synthetase regulatory protein; Provisional; Region: PRK05339 696125000002 Maf-like protein; Region: Maf; pfam02545 696125000003 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 696125000004 active site 696125000005 dimer interface [polypeptide binding]; other site 696125000006 shikimate 5-dehydrogenase 696125000007 shikimate 5-dehydrogenase 696125000008 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 696125000009 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 696125000010 CoA-binding site [chemical binding]; other site 696125000011 ATP-binding [chemical binding]; other site 696125000012 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 696125000013 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 696125000014 active site 696125000015 catalytic site [active] 696125000016 substrate binding site [chemical binding]; other site 696125000017 DNA polymerase I; Provisional; Region: PRK05755 696125000018 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 696125000019 active site 696125000020 metal binding site 1 [ion binding]; metal-binding site 696125000021 putative 5' ssDNA interaction site; other site 696125000022 metal binding site 3; metal-binding site 696125000023 metal binding site 2 [ion binding]; metal-binding site 696125000024 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 696125000025 putative DNA binding site [nucleotide binding]; other site 696125000026 putative metal binding site [ion binding]; other site 696125000027 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 696125000028 active site 696125000029 catalytic site [active] 696125000030 substrate binding site [chemical binding]; other site 696125000031 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 696125000032 active site 696125000033 DNA binding site [nucleotide binding] 696125000034 catalytic site [active] 696125000035 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 696125000036 putative catalytic site [active] 696125000037 putative metal binding site [ion binding]; other site 696125000038 putative phosphate binding site [ion binding]; other site 696125000039 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 696125000040 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 696125000041 lipoprotein signal peptidase; Provisional; Region: PRK14795 696125000042 lipoprotein signal peptidase; Provisional; Region: PRK14787 696125000043 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 696125000044 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 696125000045 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 696125000046 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 696125000047 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 696125000048 S-adenosylmethionine binding site [chemical binding]; other site 696125000049 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 696125000050 IHF dimer interface [polypeptide binding]; other site 696125000051 IHF - DNA interface [nucleotide binding]; other site 696125000052 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 696125000053 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 696125000054 OstA-like protein; Region: OstA; pfam03968 696125000055 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 696125000056 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 696125000057 Walker A/P-loop; other site 696125000058 ATP binding site [chemical binding]; other site 696125000059 Q-loop/lid; other site 696125000060 ABC transporter signature motif; other site 696125000061 Walker B; other site 696125000062 D-loop; other site 696125000063 H-loop/switch region; other site 696125000064 peptide chain release factor 3 696125000065 hypothetical protein;Evidence 5 : No homology to any previously reported sequences 696125000066 peptide chain release factor 3 696125000067 peptide chain release factor 3 696125000068 peptide chain release factor 3 696125000069 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 696125000070 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 696125000071 active site 696125000072 nucleotide binding site [chemical binding]; other site 696125000073 HIGH motif; other site 696125000074 KMSKS motif; other site 696125000075 argininosuccinate synthase; Provisional; Region: PRK13820 696125000076 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 696125000077 ANP binding site [chemical binding]; other site 696125000078 Substrate Binding Site II [chemical binding]; other site 696125000079 Substrate Binding Site I [chemical binding]; other site 696125000080 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 696125000081 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 696125000082 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 696125000083 FeS/SAM binding site; other site 696125000084 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 696125000085 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cl00163 696125000086 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cl00163 696125000087 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 696125000088 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 696125000089 catalytic residues [active] 696125000090 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 696125000091 Part of AAA domain; Region: AAA_19; pfam13245 696125000092 Family description; Region: UvrD_C_2; pfam13538 696125000093 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 696125000094 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 696125000095 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 696125000096 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 696125000097 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 696125000098 Phosphotransferase enzyme family; Region: APH; pfam01636 696125000099 PAS domain; Region: PAS; smart00091 696125000100 PAS fold; Region: PAS_7; pfam12860 696125000101 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 696125000102 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 696125000103 dimer interface [polypeptide binding]; other site 696125000104 phosphorylation site [posttranslational modification] 696125000105 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 696125000106 ATP binding site [chemical binding]; other site 696125000107 Mg2+ binding site [ion binding]; other site 696125000108 G-X-G motif; other site 696125000109 Adenosylhomocysteinase; Provisional; Region: PTZ00075 696125000110 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 696125000111 homotetramer interface [polypeptide binding]; other site 696125000112 ligand binding site [chemical binding]; other site 696125000113 catalytic site [active] 696125000114 NAD binding site [chemical binding]; other site 696125000115 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 696125000116 NADH(P)-binding; Region: NAD_binding_10; pfam13460 696125000117 putative NAD(P) binding site [chemical binding]; other site 696125000118 active site 696125000119 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 696125000120 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 696125000121 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 696125000122 CysZ-like protein; Reviewed; Region: PRK12768 696125000123 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional; Region: PRK13982 696125000124 Flavoprotein; Region: Flavoprotein; pfam02441 696125000125 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 696125000126 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 696125000127 ABC1 family; Region: ABC1; cl17513 696125000128 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 696125000129 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 696125000130 S-adenosylmethionine binding site [chemical binding]; other site 696125000131 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 696125000132 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 696125000133 Mg2+ binding site [ion binding]; other site 696125000134 G-X-G motif; other site 696125000135 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 696125000136 anchoring element; other site 696125000137 dimer interface [polypeptide binding]; other site 696125000138 ATP binding site [chemical binding]; other site 696125000139 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 696125000140 active site 696125000141 metal binding site [ion binding]; metal-binding site 696125000142 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 696125000143 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 696125000144 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 696125000145 substrate binding pocket [chemical binding]; other site 696125000146 membrane-bound complex binding site; other site 696125000147 hinge residues; other site 696125000148 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 696125000149 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 696125000150 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 696125000151 Walker A motif; other site 696125000152 ATP binding site [chemical binding]; other site 696125000153 Walker B motif; other site 696125000154 arginine finger; other site 696125000155 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 696125000156 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 696125000157 Surface antigen; Region: Bac_surface_Ag; pfam01103 696125000158 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 696125000159 Family of unknown function (DUF490); Region: DUF490; pfam04357 696125000160 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 696125000161 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 696125000162 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 696125000163 Walker A/P-loop; other site 696125000164 ATP binding site [chemical binding]; other site 696125000165 Q-loop/lid; other site 696125000166 ABC transporter signature motif; other site 696125000167 Walker B; other site 696125000168 D-loop; other site 696125000169 H-loop/switch region; other site 696125000170 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 696125000171 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 696125000172 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 696125000173 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 696125000174 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 696125000175 Protein of unknown function DUF45; Region: DUF45; pfam01863 696125000176 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 696125000177 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 696125000178 metal binding site [ion binding]; metal-binding site 696125000179 dimer interface [polypeptide binding]; other site 696125000180 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 696125000181 HemN C-terminal domain; Region: HemN_C; pfam06969 696125000182 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 696125000183 active site 696125000184 dimerization interface [polypeptide binding]; other site 696125000185 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 696125000186 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 696125000187 heat shock protein GrpE; Provisional; Region: PRK14141 696125000188 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 696125000189 dimer interface [polypeptide binding]; other site 696125000190 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 696125000191 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 696125000192 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 696125000193 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 696125000194 HAMP domain; Region: HAMP; pfam00672 696125000195 dimerization interface [polypeptide binding]; other site 696125000196 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 696125000197 dimer interface [polypeptide binding]; other site 696125000198 phosphorylation site [posttranslational modification] 696125000199 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 696125000200 ATP binding site [chemical binding]; other site 696125000201 Mg2+ binding site [ion binding]; other site 696125000202 G-X-G motif; other site 696125000203 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 696125000204 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 696125000205 active site 696125000206 phosphorylation site [posttranslational modification] 696125000207 intermolecular recognition site; other site 696125000208 dimerization interface [polypeptide binding]; other site 696125000209 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 696125000210 DNA binding site [nucleotide binding] 696125000211 Protein of unknown function (DUF461); Region: DUF461; pfam04314 696125000212 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 696125000213 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 696125000214 nucleotide binding site [chemical binding]; other site 696125000215 NEF interaction site [polypeptide binding]; other site 696125000216 SBD interface [polypeptide binding]; other site 696125000217 chaperone protein DnaJ; Provisional; Region: PRK10767 696125000218 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 696125000219 HSP70 interaction site [polypeptide binding]; other site 696125000220 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 696125000221 substrate binding site [polypeptide binding]; other site 696125000222 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 696125000223 Zn binding sites [ion binding]; other site 696125000224 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 696125000225 dimer interface [polypeptide binding]; other site 696125000226 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 696125000227 homohexameric interface [polypeptide binding]; other site 696125000228 feedback inhibition sensing region; other site 696125000229 nucleotide binding site [chemical binding]; other site 696125000230 N-acetyl-L-glutamate binding site [chemical binding]; other site 696125000231 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 696125000232 EamA-like transporter family; Region: EamA; pfam00892 696125000233 EamA-like transporter family; Region: EamA; pfam00892 696125000234 Fic/DOC family; Region: Fic; cl00960 696125000235 type IV secretion system protein virB11;Evidence 7 : Gene remnant; PubMedId : 12421311, 12727865; Product type e : enzyme 696125000236 type IV secretion system protein virB11;Evidence 7 : Gene remnant; PubMedId : 12421311, 12727865; Product type e : enzyme 696125000237 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 696125000238 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 696125000239 VirB7 interaction site; other site 696125000240 VirB8 protein; Region: VirB8; cl01500 696125000241 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 696125000242 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 696125000243 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 696125000244 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 696125000245 TrbC/VIRB2 family; Region: TrbC; pfam04956 696125000246 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 696125000247 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 696125000248 trimer interface [polypeptide binding]; other site 696125000249 active site 696125000250 substrate binding site [chemical binding]; other site 696125000251 CoA binding site [chemical binding]; other site 696125000252 GTP-binding protein LepA; Provisional; Region: PRK05433 696125000253 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 696125000254 putative GEF interaction site [polypeptide binding]; other site 696125000255 Switch I region; other site 696125000256 G2 box; other site 696125000257 G3 box; other site 696125000258 Switch II region; other site 696125000259 GTP/Mg2+ binding site [chemical binding]; other site 696125000260 G4 box; other site 696125000261 G5 box; other site 696125000262 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 696125000263 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 696125000264 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 696125000265 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 696125000266 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 696125000267 dimerization interface 3.5A [polypeptide binding]; other site 696125000268 active site 696125000269 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 696125000270 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 696125000271 putative active site [active] 696125000272 substrate binding site [chemical binding]; other site 696125000273 putative cosubstrate binding site; other site 696125000274 catalytic site [active] 696125000275 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 696125000276 substrate binding site [chemical binding]; other site 696125000277 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 696125000278 active site 696125000279 catalytic residues [active] 696125000280 metal binding site [ion binding]; metal-binding site 696125000281 RmuC family; Region: RmuC; pfam02646 696125000282 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 696125000283 N-acetyl-D-glucosamine binding site [chemical binding]; other site 696125000284 catalytic residue [active] 696125000285 Protein of unknown function (DUF1150); Region: DUF1150; cl11577 696125000286 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 696125000287 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 696125000288 minor groove reading motif; other site 696125000289 helix-hairpin-helix signature motif; other site 696125000290 substrate binding pocket [chemical binding]; other site 696125000291 active site 696125000292 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 696125000293 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 696125000294 23S rRNA binding site [nucleotide binding]; other site 696125000295 L21 binding site [polypeptide binding]; other site 696125000296 L13 binding site [polypeptide binding]; other site 696125000297 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 696125000298 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 696125000299 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 696125000300 dimer interface [polypeptide binding]; other site 696125000301 motif 1; other site 696125000302 active site 696125000303 motif 2; other site 696125000304 motif 3; other site 696125000305 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 696125000306 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 696125000307 putative tRNA-binding site [nucleotide binding]; other site 696125000308 B3/4 domain; Region: B3_4; pfam03483 696125000309 tRNA synthetase B5 domain; Region: B5; smart00874 696125000310 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 696125000311 dimer interface [polypeptide binding]; other site 696125000312 motif 1; other site 696125000313 motif 3; other site 696125000314 motif 2; other site 696125000315 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 696125000316 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 696125000317 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 696125000318 metal binding site [ion binding]; metal-binding site 696125000319 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 696125000320 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 696125000321 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 696125000322 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 696125000323 ABC-ATPase subunit interface; other site 696125000324 dimer interface [polypeptide binding]; other site 696125000325 putative PBP binding regions; other site 696125000326 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 696125000327 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 696125000328 ABC-ATPase subunit interface; other site 696125000329 dimer interface [polypeptide binding]; other site 696125000330 putative PBP binding regions; other site 696125000331 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 696125000332 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 696125000333 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 696125000334 active site 696125000335 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 696125000336 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 696125000337 Putative glucoamylase; Region: Glycoamylase; pfam10091 696125000338 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 696125000339 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 696125000340 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 696125000341 Protein of unknown function, DUF608; Region: DUF608; pfam04685 696125000342 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 696125000343 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 696125000344 RNA binding site [nucleotide binding]; other site 696125000345 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 696125000346 RNA binding site [nucleotide binding]; other site 696125000347 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 696125000348 RNA binding site [nucleotide binding]; other site 696125000349 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 696125000350 RNA binding site [nucleotide binding]; other site 696125000351 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 696125000352 RNA binding site [nucleotide binding]; other site 696125000353 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 696125000354 RNA binding site [nucleotide binding]; other site 696125000355 cytidylate kinase; Provisional; Region: cmk; PRK00023 696125000356 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 696125000357 CMP-binding site; other site 696125000358 The sites determining sugar specificity; other site 696125000359 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 696125000360 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 696125000361 hinge; other site 696125000362 active site 696125000363 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 696125000364 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 696125000365 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 696125000366 MutS domain I; Region: MutS_I; pfam01624 696125000367 MutS domain II; Region: MutS_II; pfam05188 696125000368 MutS domain III; Region: MutS_III; pfam05192 696125000369 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 696125000370 Walker A/P-loop; other site 696125000371 ATP binding site [chemical binding]; other site 696125000372 Q-loop/lid; other site 696125000373 ABC transporter signature motif; other site 696125000374 Walker B; other site 696125000375 D-loop; other site 696125000376 H-loop/switch region; other site 696125000377 NADP-dependent malic enzyme 696125000378 NADP-dependent malic enzyme 696125000379 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 696125000380 NADP-dependent malic enzyme 696125000381 NADP-dependent malic enzyme 696125000382 NADP-dependent malic enzyme 696125000383 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 696125000384 preprotein translocase subunit SecB; Validated; Region: PRK05751 696125000385 SecA binding site; other site 696125000386 Preprotein binding site; other site 696125000387 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 696125000388 Tim44-like domain; Region: Tim44; pfam04280 696125000389 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 696125000390 Smr domain; Region: Smr; pfam01713 696125000391 effector protein;Evidence 7 : Gene remnant; Product type f : factor 696125000392 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 696125000393 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 696125000394 dimerization interface [polypeptide binding]; other site 696125000395 domain crossover interface; other site 696125000396 redox-dependent activation switch; other site 696125000397 ornithine carbamoyltransferase; Provisional; Region: PRK00779 696125000398 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 696125000399 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 696125000400 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 696125000401 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 696125000402 inhibitor-cofactor binding pocket; inhibition site 696125000403 pyridoxal 5'-phosphate binding site [chemical binding]; other site 696125000404 catalytic residue [active] 696125000405 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5352 696125000406 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 696125000407 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 696125000408 Heme exporter protein D (CcmD); Region: CcmD; cl11475 696125000409 heme exporter protein CcmC; Region: ccmC; TIGR01191 696125000410 CcmB protein; Region: CcmB; cl17444 696125000411 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 696125000412 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 696125000413 Walker A/P-loop; other site 696125000414 ATP binding site [chemical binding]; other site 696125000415 Q-loop/lid; other site 696125000416 ABC transporter signature motif; other site 696125000417 Walker B; other site 696125000418 D-loop; other site 696125000419 H-loop/switch region; other site 696125000420 aconitate hydratase; Validated; Region: PRK09277 696125000421 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 696125000422 substrate binding site [chemical binding]; other site 696125000423 ligand binding site [chemical binding]; other site 696125000424 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 696125000425 substrate binding site [chemical binding]; other site 696125000426 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 696125000427 DnaA N-terminal domain; Region: DnaA_N; pfam11638 696125000428 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 696125000429 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 696125000430 Walker A motif; other site 696125000431 ATP binding site [chemical binding]; other site 696125000432 Walker B motif; other site 696125000433 arginine finger; other site 696125000434 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 696125000435 DnaA box-binding interface [nucleotide binding]; other site 696125000436 DNA polymerase III subunit beta; Validated; Region: PRK05643 696125000437 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 696125000438 putative DNA binding surface [nucleotide binding]; other site 696125000439 dimer interface [polypeptide binding]; other site 696125000440 beta-clamp/clamp loader binding surface; other site 696125000441 beta-clamp/translesion DNA polymerase binding surface; other site 696125000442 recombination protein F; Reviewed; Region: recF; PRK00064 696125000443 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 696125000444 Walker A/P-loop; other site 696125000445 ATP binding site [chemical binding]; other site 696125000446 Q-loop/lid; other site 696125000447 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 696125000448 ABC transporter signature motif; other site 696125000449 Walker B; other site 696125000450 D-loop; other site 696125000451 H-loop/switch region; other site 696125000452 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 696125000453 Dehydroquinase class II; Region: DHquinase_II; pfam01220 696125000454 trimer interface [polypeptide binding]; other site 696125000455 active site 696125000456 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 696125000457 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 696125000458 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 696125000459 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 696125000460 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 696125000461 D-pathway; other site 696125000462 Putative ubiquinol binding site [chemical binding]; other site 696125000463 Low-spin heme (heme b) binding site [chemical binding]; other site 696125000464 Putative water exit pathway; other site 696125000465 Binuclear center (heme o3/CuB) [ion binding]; other site 696125000466 K-pathway; other site 696125000467 Putative proton exit pathway; other site 696125000468 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 696125000469 Subunit I/III interface [polypeptide binding]; other site 696125000470 Subunit III/IV interface [polypeptide binding]; other site 696125000471 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 696125000472 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 696125000473 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 696125000474 NAD binding site [chemical binding]; other site 696125000475 homotetramer interface [polypeptide binding]; other site 696125000476 homodimer interface [polypeptide binding]; other site 696125000477 substrate binding site [chemical binding]; other site 696125000478 active site 696125000479 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 696125000480 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 696125000481 dimer interface [polypeptide binding]; other site 696125000482 active site 696125000483 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 696125000484 active site 1 [active] 696125000485 dimer interface [polypeptide binding]; other site 696125000486 active site 2 [active] 696125000487 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 696125000488 metal binding site 2 [ion binding]; metal-binding site 696125000489 putative DNA binding helix; other site 696125000490 metal binding site 1 [ion binding]; metal-binding site 696125000491 dimer interface [polypeptide binding]; other site 696125000492 structural Zn2+ binding site [ion binding]; other site 696125000493 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 696125000494 Bacterial SH3 domain; Region: SH3_4; pfam06347 696125000495 Bacterial SH3 domain; Region: SH3_4; pfam06347 696125000496 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 696125000497 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 696125000498 Autotransporter beta-domain; Region: Autotransporter; smart00869 696125000499 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 696125000500 NlpC/P60 family; Region: NLPC_P60; cl17555 696125000501 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 696125000502 multifunctional aminopeptidase A; Provisional; Region: PRK00913 696125000503 interface (dimer of trimers) [polypeptide binding]; other site 696125000504 Substrate-binding/catalytic site; other site 696125000505 Zn-binding sites [ion binding]; other site 696125000506 pantothenate kinase; Provisional; Region: PRK05439 696125000507 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 696125000508 ATP-binding site [chemical binding]; other site 696125000509 CoA-binding site [chemical binding]; other site 696125000510 Mg2+-binding site [ion binding]; other site 696125000511 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 696125000512 active site 696125000513 homotetramer interface [polypeptide binding]; other site 696125000514 homodimer interface [polypeptide binding]; other site 696125000515 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 696125000516 active site 696125000517 HslU subunit interaction site [polypeptide binding]; other site 696125000518 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 696125000519 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 696125000520 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 696125000521 Walker A motif; other site 696125000522 ATP binding site [chemical binding]; other site 696125000523 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 696125000524 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 696125000525 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 696125000526 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 696125000527 S-adenosylmethionine binding site [chemical binding]; other site 696125000528 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 696125000529 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 696125000530 RNase E interface [polypeptide binding]; other site 696125000531 trimer interface [polypeptide binding]; other site 696125000532 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 696125000533 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 696125000534 RNase E interface [polypeptide binding]; other site 696125000535 trimer interface [polypeptide binding]; other site 696125000536 active site 696125000537 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 696125000538 putative nucleic acid binding region [nucleotide binding]; other site 696125000539 G-X-X-G motif; other site 696125000540 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 696125000541 RNA binding site [nucleotide binding]; other site 696125000542 domain interface; other site 696125000543 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 696125000544 16S/18S rRNA binding site [nucleotide binding]; other site 696125000545 S13e-L30e interaction site [polypeptide binding]; other site 696125000546 25S rRNA binding site [nucleotide binding]; other site 696125000547 Transmembrane secretion effector; Region: MFS_3; pfam05977 696125000548 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 696125000549 putative substrate translocation pore; other site 696125000550 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 696125000551 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 696125000552 RNA binding site [nucleotide binding]; other site 696125000553 active site 696125000554 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 696125000555 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 696125000556 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 696125000557 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 696125000558 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 696125000559 G1 box; other site 696125000560 putative GEF interaction site [polypeptide binding]; other site 696125000561 GTP/Mg2+ binding site [chemical binding]; other site 696125000562 Switch I region; other site 696125000563 G2 box; other site 696125000564 G3 box; other site 696125000565 Switch II region; other site 696125000566 G4 box; other site 696125000567 G5 box; other site 696125000568 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 696125000569 Translation-initiation factor 2; Region: IF-2; pfam11987 696125000570 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 696125000571 hypothetical protein; Provisional; Region: PRK09190 696125000572 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 696125000573 putative RNA binding cleft [nucleotide binding]; other site 696125000574 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 696125000575 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 696125000576 NusA N-terminal domain; Region: NusA_N; pfam08529 696125000577 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 696125000578 RNA binding site [nucleotide binding]; other site 696125000579 homodimer interface [polypeptide binding]; other site 696125000580 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 696125000581 G-X-X-G motif; other site 696125000582 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 696125000583 G-X-X-G motif; other site 696125000584 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 696125000585 ribosome maturation protein RimP; Reviewed; Region: PRK00092 696125000586 Sm and related proteins; Region: Sm_like; cl00259 696125000587 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 696125000588 putative oligomer interface [polypeptide binding]; other site 696125000589 putative RNA binding site [nucleotide binding]; other site 696125000590 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 696125000591 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 696125000592 S-adenosylmethionine synthetase; Validated; Region: PRK05250 696125000593 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 696125000594 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 696125000595 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 696125000596 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 696125000597 non-specific DNA binding site [nucleotide binding]; other site 696125000598 salt bridge; other site 696125000599 sequence-specific DNA binding site [nucleotide binding]; other site 696125000600 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 696125000601 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 696125000602 putative active site [active] 696125000603 catalytic triad [active] 696125000604 putative dimer interface [polypeptide binding]; other site 696125000605 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 696125000606 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 696125000607 Transporter associated domain; Region: CorC_HlyC; smart01091 696125000608 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 696125000609 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 696125000610 PhoH-like protein; Region: PhoH; pfam02562 696125000611 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 696125000612 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 696125000613 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 696125000614 FeS/SAM binding site; other site 696125000615 TRAM domain; Region: TRAM; cl01282 696125000616 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 696125000617 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 696125000618 Coenzyme A binding pocket [chemical binding]; other site 696125000619 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 696125000620 Glycoprotease family; Region: Peptidase_M22; pfam00814 696125000621 Predicted membrane protein [Function unknown]; Region: COG2855 696125000622 recombination protein RecR; Reviewed; Region: recR; PRK00076 696125000623 RecR protein; Region: RecR; pfam02132 696125000624 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 696125000625 putative active site [active] 696125000626 putative metal-binding site [ion binding]; other site 696125000627 tetramer interface [polypeptide binding]; other site 696125000628 hypothetical protein; Validated; Region: PRK00153 696125000629 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 696125000630 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 696125000631 Walker A motif; other site 696125000632 ATP binding site [chemical binding]; other site 696125000633 Walker B motif; other site 696125000634 arginine finger; other site 696125000635 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 696125000636 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 696125000637 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 696125000638 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 696125000639 Ligand binding site; other site 696125000640 oligomer interface; other site 696125000641 Cytochrome c2 [Energy production and conversion]; Region: COG3474 696125000642 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 696125000643 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 696125000644 dimer interface [polypeptide binding]; other site 696125000645 conserved gate region; other site 696125000646 putative PBP binding loops; other site 696125000647 ABC-ATPase subunit interface; other site 696125000648 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 696125000649 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 696125000650 dimer interface [polypeptide binding]; other site 696125000651 conserved gate region; other site 696125000652 putative PBP binding loops; other site 696125000653 ABC-ATPase subunit interface; other site 696125000654 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 696125000655 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 696125000656 Walker A/P-loop; other site 696125000657 ATP binding site [chemical binding]; other site 696125000658 Q-loop/lid; other site 696125000659 ABC transporter signature motif; other site 696125000660 Walker B; other site 696125000661 D-loop; other site 696125000662 H-loop/switch region; other site 696125000663 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 696125000664 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 696125000665 Walker A/P-loop; other site 696125000666 ATP binding site [chemical binding]; other site 696125000667 Q-loop/lid; other site 696125000668 ABC transporter signature motif; other site 696125000669 Walker B; other site 696125000670 D-loop; other site 696125000671 H-loop/switch region; other site 696125000672 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 696125000673 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 696125000674 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 696125000675 ATP binding site [chemical binding]; other site 696125000676 substrate interface [chemical binding]; other site 696125000677 glutathione synthetase; Provisional; Region: PRK05246 696125000678 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 696125000679 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 696125000680 PBP superfamily domain; Region: PBP_like_2; pfam12849 696125000681 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 696125000682 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 696125000683 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 696125000684 dimer interface [polypeptide binding]; other site 696125000685 conserved gate region; other site 696125000686 putative PBP binding loops; other site 696125000687 ABC-ATPase subunit interface; other site 696125000688 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 696125000689 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 696125000690 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 696125000691 dimer interface [polypeptide binding]; other site 696125000692 conserved gate region; other site 696125000693 putative PBP binding loops; other site 696125000694 ABC-ATPase subunit interface; other site 696125000695 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 696125000696 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 696125000697 Walker A/P-loop; other site 696125000698 ATP binding site [chemical binding]; other site 696125000699 Q-loop/lid; other site 696125000700 ABC transporter signature motif; other site 696125000701 Walker B; other site 696125000702 D-loop; other site 696125000703 H-loop/switch region; other site 696125000704 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 696125000705 PhoU domain; Region: PhoU; pfam01895 696125000706 PhoU domain; Region: PhoU; pfam01895 696125000707 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 696125000708 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 696125000709 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 696125000710 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 696125000711 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 696125000712 DNA binding site [nucleotide binding] 696125000713 catalytic residue [active] 696125000714 H2TH interface [polypeptide binding]; other site 696125000715 putative catalytic residues [active] 696125000716 turnover-facilitating residue; other site 696125000717 intercalation triad [nucleotide binding]; other site 696125000718 8OG recognition residue [nucleotide binding]; other site 696125000719 putative reading head residues; other site 696125000720 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 696125000721 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 696125000722 hypothetical protein; Validated; Region: PRK09104 696125000723 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 696125000724 metal binding site [ion binding]; metal-binding site 696125000725 putative dimer interface [polypeptide binding]; other site 696125000726 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 696125000727 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 696125000728 catalytic site [active] 696125000729 putative active site [active] 696125000730 putative substrate binding site [chemical binding]; other site 696125000731 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 696125000732 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 696125000733 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 696125000734 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 696125000735 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 696125000736 active site 696125000737 HIGH motif; other site 696125000738 nucleotide binding site [chemical binding]; other site 696125000739 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 696125000740 active site 696125000741 KMSKS motif; other site 696125000742 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 696125000743 tRNA binding surface [nucleotide binding]; other site 696125000744 anticodon binding site; other site 696125000745 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 696125000746 nucleoside/Zn binding site; other site 696125000747 dimer interface [polypeptide binding]; other site 696125000748 catalytic motif [active] 696125000749 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 696125000750 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 696125000751 RNA binding surface [nucleotide binding]; other site 696125000752 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 696125000753 active site 696125000754 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 696125000755 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 696125000756 S-adenosylmethionine binding site [chemical binding]; other site 696125000757 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 696125000758 nucleophile elbow; other site 696125000759 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 696125000760 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 696125000761 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 696125000762 active site 696125000763 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 696125000764 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 696125000765 putative acyl-acceptor binding pocket; other site 696125000766 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 696125000767 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 696125000768 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 696125000769 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 696125000770 Uncharacterized protein conserved in bacteria (DUF2093); Region: DUF2093; pfam09866 696125000771 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 696125000772 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 696125000773 ATP binding site [chemical binding]; other site 696125000774 Mg2+ binding site [ion binding]; other site 696125000775 G-X-G motif; other site 696125000776 DNA mismatch repair protein, C-terminal domain; Region: DNA_mis_repair; pfam01119 696125000777 ATP binding site [chemical binding]; other site 696125000778 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 696125000779 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 696125000780 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 696125000781 trimer interface [polypeptide binding]; other site 696125000782 active site 696125000783 Deoxycytidine deaminase [Nucleotide transport and metabolism]; Region: Dcd; COG0717 696125000784 trimer interface [polypeptide binding]; other site 696125000785 active site 696125000786 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 696125000787 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 696125000788 phosphate binding site [ion binding]; other site 696125000789 BioY family; Region: BioY; pfam02632 696125000790 Cobalt transport protein; Region: CbiQ; cl00463 696125000791 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 696125000792 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 696125000793 Walker A/P-loop; other site 696125000794 ATP binding site [chemical binding]; other site 696125000795 Q-loop/lid; other site 696125000796 ABC transporter signature motif; other site 696125000797 Walker B; other site 696125000798 D-loop; other site 696125000799 H-loop/switch region; other site 696125000800 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 696125000801 SlyX; Region: SlyX; cl01090 696125000802 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 696125000803 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 696125000804 GDP-binding site [chemical binding]; other site 696125000805 ACT binding site; other site 696125000806 IMP binding site; other site 696125000807 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 696125000808 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 696125000809 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 696125000810 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 696125000811 DNA binding residues [nucleotide binding] 696125000812 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 696125000813 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 696125000814 RNA binding surface [nucleotide binding]; other site 696125000815 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 696125000816 active site 696125000817 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 696125000818 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 696125000819 NAD binding site [chemical binding]; other site 696125000820 catalytic residues [active] 696125000821 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 696125000822 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 696125000823 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 696125000824 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 696125000825 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 696125000826 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 696125000827 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 696125000828 quinone interaction residues [chemical binding]; other site 696125000829 active site 696125000830 catalytic residues [active] 696125000831 FMN binding site [chemical binding]; other site 696125000832 substrate binding site [chemical binding]; other site 696125000833 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 696125000834 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 696125000835 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 696125000836 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 696125000837 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 696125000838 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 696125000839 putative active site [active] 696125000840 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 696125000841 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 696125000842 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 696125000843 homodimer interface [polypeptide binding]; other site 696125000844 NADP binding site [chemical binding]; other site 696125000845 substrate binding site [chemical binding]; other site 696125000846 AsmA family; Region: AsmA; pfam05170 696125000847 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 696125000848 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 696125000849 Gamma-glutamylcysteine synthetase [Coenzyme metabolism]; Region: GshA; COG3572 696125000850 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 696125000851 Fic/DOC family; Region: Fic; cl00960 696125000852 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 696125000853 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 696125000854 HlyD family secretion protein; Region: HlyD_3; pfam13437 696125000855 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 696125000856 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 696125000857 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 696125000858 active site 696125000859 dimer interface [polypeptide binding]; other site 696125000860 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 696125000861 dimer interface [polypeptide binding]; other site 696125000862 active site 696125000863 YopJ Serine/Threonine acetyltransferase; Region: YopJ; cl07849 696125000864 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 696125000865 effector protein;Evidence 7 : Gene remnant; Product type f : factor 696125000866 effector protein;Evidence 7 : Gene remnant; Product type f : factor 696125000867 Fic/DOC family; Region: Fic; cl00960 696125000868 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 696125000869 catalytic core [active] 696125000870 dihydrodipicolinate reductase; Provisional; Region: PRK00048 696125000871 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 696125000872 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 696125000873 Fic/DOC family; Region: Fic; cl00960 696125000874 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 696125000875 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 696125000876 C-terminal domain interface [polypeptide binding]; other site 696125000877 GSH binding site (G-site) [chemical binding]; other site 696125000878 dimer interface [polypeptide binding]; other site 696125000879 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 696125000880 N-terminal domain interface [polypeptide binding]; other site 696125000881 dimer interface [polypeptide binding]; other site 696125000882 substrate binding pocket (H-site) [chemical binding]; other site 696125000883 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 696125000884 G1 box; other site 696125000885 GTP/Mg2+ binding site [chemical binding]; other site 696125000886 Switch I region; other site 696125000887 G2 box; other site 696125000888 G3 box; other site 696125000889 Switch II region; other site 696125000890 G4 box; other site 696125000891 G5 box; other site 696125000892 membrane protein insertase; Provisional; Region: PRK01318 696125000893 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 696125000894 ribonuclease P; Reviewed; Region: rnpA; PRK01313 696125000895 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 696125000896 Domain of unknown function DUF59; Region: DUF59; pfam01883 696125000897 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 696125000898 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 696125000899 Walker A motif; other site 696125000900 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 696125000901 active site 696125000902 dimer interface [polypeptide binding]; other site 696125000903 Predicted methyltransferases [General function prediction only]; Region: COG0313 696125000904 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 696125000905 putative SAM binding site [chemical binding]; other site 696125000906 putative homodimer interface [polypeptide binding]; other site 696125000907 hypothetical protein; Reviewed; Region: PRK12497 696125000908 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK06476 696125000909 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 696125000910 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 696125000911 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 696125000912 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 696125000913 hydroxyglutarate oxidase; Provisional; Region: PRK11728 696125000914 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 696125000915 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 696125000916 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 696125000917 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 696125000918 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 696125000919 Ligand binding site [chemical binding]; other site 696125000920 Electron transfer flavoprotein domain; Region: ETF; pfam01012 696125000921 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 696125000922 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; pfam09608 696125000923 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 696125000924 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 696125000925 generic binding surface II; other site 696125000926 generic binding surface I; other site 696125000927 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 696125000928 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 696125000929 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 696125000930 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 696125000931 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 696125000932 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 696125000933 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 696125000934 dimer interface [polypeptide binding]; other site 696125000935 conserved gate region; other site 696125000936 putative PBP binding loops; other site 696125000937 ABC-ATPase subunit interface; other site 696125000938 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 696125000939 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 696125000940 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 696125000941 dimer interface [polypeptide binding]; other site 696125000942 conserved gate region; other site 696125000943 ABC-ATPase subunit interface; other site 696125000944 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 696125000945 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 696125000946 Walker A/P-loop; other site 696125000947 ATP binding site [chemical binding]; other site 696125000948 Q-loop/lid; other site 696125000949 ABC transporter signature motif; other site 696125000950 Walker B; other site 696125000951 D-loop; other site 696125000952 H-loop/switch region; other site 696125000953 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 696125000954 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 696125000955 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 696125000956 Walker A/P-loop; other site 696125000957 ATP binding site [chemical binding]; other site 696125000958 Q-loop/lid; other site 696125000959 ABC transporter signature motif; other site 696125000960 Walker B; other site 696125000961 D-loop; other site 696125000962 H-loop/switch region; other site 696125000963 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 696125000964 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 696125000965 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 696125000966 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 696125000967 inhibitor-cofactor binding pocket; inhibition site 696125000968 pyridoxal 5'-phosphate binding site [chemical binding]; other site 696125000969 catalytic residue [active] 696125000970 Protein of unknown function (DUF1134); Region: DUF1134; pfam06577 696125000971 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5385 696125000972 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 696125000973 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 696125000974 active site 696125000975 phosphorylation site [posttranslational modification] 696125000976 intermolecular recognition site; other site 696125000977 dimerization interface [polypeptide binding]; other site 696125000978 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 696125000979 DNA binding site [nucleotide binding] 696125000980 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 696125000981 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 696125000982 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 696125000983 Ligand Binding Site [chemical binding]; other site 696125000984 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 696125000985 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 696125000986 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 696125000987 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 696125000988 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 696125000989 active site 696125000990 metal binding site [ion binding]; metal-binding site 696125000991 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 696125000992 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 696125000993 Protein of unknown function (DUF1355); Region: DUF1355; pfam07090 696125000994 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 696125000995 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 696125000996 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 696125000997 Protein of unknown function DUF58; Region: DUF58; pfam01882 696125000998 MoxR-like ATPases [General function prediction only]; Region: COG0714 696125000999 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 696125001000 Walker A motif; other site 696125001001 ATP binding site [chemical binding]; other site 696125001002 Walker B motif; other site 696125001003 arginine finger; other site 696125001004 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 696125001005 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 696125001006 active site 696125001007 NTP binding site [chemical binding]; other site 696125001008 metal binding triad [ion binding]; metal-binding site 696125001009 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 696125001010 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 696125001011 cytochrome b; Provisional; Region: CYTB; MTH00191 696125001012 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 696125001013 PRC-barrel domain; Region: PRC; pfam05239 696125001014 GTP-binding protein YchF; Reviewed; Region: PRK09601 696125001015 YchF GTPase; Region: YchF; cd01900 696125001016 G1 box; other site 696125001017 GTP/Mg2+ binding site [chemical binding]; other site 696125001018 Switch I region; other site 696125001019 G2 box; other site 696125001020 Switch II region; other site 696125001021 G3 box; other site 696125001022 G4 box; other site 696125001023 G5 box; other site 696125001024 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 696125001025 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 696125001026 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 696125001027 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 696125001028 putative active site [active] 696125001029 catalytic residue [active] 696125001030 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 696125001031 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 696125001032 5S rRNA interface [nucleotide binding]; other site 696125001033 CTC domain interface [polypeptide binding]; other site 696125001034 L16 interface [polypeptide binding]; other site 696125001035 hypothetical protein 696125001036 hypothetical protein 696125001037 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 696125001038 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 696125001039 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 696125001040 active site 696125001041 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 696125001042 putative trimer interface [polypeptide binding]; other site 696125001043 putative CoA binding site [chemical binding]; other site 696125001044 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 696125001045 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 696125001046 Uncharacterized conserved protein [Function unknown]; Region: COG1565 696125001047 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 696125001048 Membrane fusogenic activity; Region: BMFP; pfam04380 696125001049 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 696125001050 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 696125001051 HAMP domain; Region: HAMP; pfam00672 696125001052 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 696125001053 ATP binding site [chemical binding]; other site 696125001054 Mg2+ binding site [ion binding]; other site 696125001055 G-X-G motif; other site 696125001056 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 696125001057 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 696125001058 active site 696125001059 phosphorylation site [posttranslational modification] 696125001060 intermolecular recognition site; other site 696125001061 dimerization interface [polypeptide binding]; other site 696125001062 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 696125001063 DNA binding site [nucleotide binding] 696125001064 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 696125001065 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 696125001066 excinuclease ABC subunit B; Provisional; Region: PRK05298 696125001067 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 696125001068 ATP binding site [chemical binding]; other site 696125001069 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 696125001070 nucleotide binding region [chemical binding]; other site 696125001071 ATP-binding site [chemical binding]; other site 696125001072 Ultra-violet resistance protein B; Region: UvrB; pfam12344 696125001073 UvrB/uvrC motif; Region: UVR; pfam02151 696125001074 Bacterial SH3 domain; Region: SH3_3; pfam08239 696125001075 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 696125001076 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 696125001077 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 696125001078 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 696125001079 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 696125001080 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 696125001081 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 696125001082 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 696125001083 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 696125001084 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 696125001085 Transcriptional regulator [Transcription]; Region: LysR; COG0583 696125001086 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 696125001087 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 696125001088 putative effector binding pocket; other site 696125001089 dimerization interface [polypeptide binding]; other site 696125001090 aspartate aminotransferase; Provisional; Region: PRK05764 696125001091 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 696125001092 pyridoxal 5'-phosphate binding site [chemical binding]; other site 696125001093 homodimer interface [polypeptide binding]; other site 696125001094 catalytic residue [active] 696125001095 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 696125001096 DNA-binding site [nucleotide binding]; DNA binding site 696125001097 RNA-binding motif; other site 696125001098 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 696125001099 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 696125001100 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 696125001101 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 696125001102 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 696125001103 ATP-grasp domain; Region: ATP-grasp_4; cl17255 696125001104 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 696125001105 IMP binding site; other site 696125001106 dimer interface [polypeptide binding]; other site 696125001107 interdomain contacts; other site 696125001108 partial ornithine binding site; other site 696125001109 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 696125001110 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 696125001111 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 696125001112 catalytic site [active] 696125001113 subunit interface [polypeptide binding]; other site 696125001114 chorismate pyruvate lyase; Provisional; Region: ubiC; PRK11655 696125001115 Chlorophyll A-B binding protein; Region: Chloroa_b-bind; cl02879 696125001116 Predicted membrane protein [Function unknown]; Region: COG2261 696125001117 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 696125001118 Mechanosensitive ion channel; Region: MS_channel; pfam00924 696125001119 DNA primase; Validated; Region: dnaG; PRK05667 696125001120 CHC2 zinc finger; Region: zf-CHC2; cl17510 696125001121 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 696125001122 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 696125001123 active site 696125001124 metal binding site [ion binding]; metal-binding site 696125001125 interdomain interaction site; other site 696125001126 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 696125001127 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 696125001128 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 696125001129 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 696125001130 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 696125001131 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 696125001132 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 696125001133 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 696125001134 DNA binding residues [nucleotide binding] 696125001135 Uncharacterized conserved protein [Function unknown]; Region: COG2968 696125001136 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 696125001137 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 696125001138 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 696125001139 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 696125001140 RNA/DNA hybrid binding site [nucleotide binding]; other site 696125001141 active site 696125001142 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 696125001143 hypothetical protein; Validated; Region: PRK00228 696125001144 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 696125001145 PAS fold; Region: PAS_3; pfam08447 696125001146 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 696125001147 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 696125001148 metal binding site [ion binding]; metal-binding site 696125001149 active site 696125001150 I-site; other site 696125001151 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 696125001152 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 696125001153 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 696125001154 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 696125001155 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 696125001156 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 696125001157 motif II; other site 696125001158 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 696125001159 DNA methylase; Region: N6_N4_Mtase; pfam01555 696125001160 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 696125001161 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 696125001162 minor groove reading motif; other site 696125001163 helix-hairpin-helix signature motif; other site 696125001164 substrate binding pocket [chemical binding]; other site 696125001165 active site 696125001166 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 696125001167 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 696125001168 DNA binding and oxoG recognition site [nucleotide binding] 696125001169 Protein of unknown function (DUF721); Region: DUF721; cl02324 696125001170 Thioredoxin; Region: Thioredoxin_4; pfam13462 696125001171 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 696125001172 pyruvate phosphate dikinase; Provisional; Region: PRK09279 696125001173 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 696125001174 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 696125001175 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 696125001176 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 696125001177 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 696125001178 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 696125001179 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 696125001180 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 696125001181 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 696125001182 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 696125001183 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 696125001184 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 696125001185 Predicted transcriptional regulator [Transcription]; Region: COG4957 696125001186 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 696125001187 Predicted integral membrane protein [Function unknown]; Region: COG5436 696125001188 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 696125001189 Transglycosylase; Region: Transgly; pfam00912 696125001190 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 696125001191 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 696125001192 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 696125001193 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 696125001194 active site 696125001195 phosphorylation site [posttranslational modification] 696125001196 intermolecular recognition site; other site 696125001197 dimerization interface [polypeptide binding]; other site 696125001198 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 696125001199 DNA binding site [nucleotide binding] 696125001200 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 696125001201 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 696125001202 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 696125001203 ATP binding site [chemical binding]; other site 696125001204 Mg2+ binding site [ion binding]; other site 696125001205 G-X-G motif; other site 696125001206 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 696125001207 TPR motif; other site 696125001208 binding surface 696125001209 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 696125001210 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 696125001211 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 696125001212 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 696125001213 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 696125001214 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 696125001215 protein binding site [polypeptide binding]; other site 696125001216 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 696125001217 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 696125001218 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 696125001219 active site 696125001220 phosphorylation site [posttranslational modification] 696125001221 intermolecular recognition site; other site 696125001222 dimerization interface [polypeptide binding]; other site 696125001223 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 696125001224 DNA binding site [nucleotide binding] 696125001225 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 696125001226 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 696125001227 dimerization interface [polypeptide binding]; other site 696125001228 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 696125001229 dimer interface [polypeptide binding]; other site 696125001230 phosphorylation site [posttranslational modification] 696125001231 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 696125001232 ATP binding site [chemical binding]; other site 696125001233 Mg2+ binding site [ion binding]; other site 696125001234 G-X-G motif; other site 696125001235 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 696125001236 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 696125001237 metal binding triad; other site 696125001238 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 696125001239 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 696125001240 metal binding triad; other site 696125001241 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 696125001242 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 696125001243 DNA binding site [nucleotide binding] 696125001244 active site 696125001245 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 696125001246 PAS fold; Region: PAS_3; pfam08447 696125001247 putative active site [active] 696125001248 heme pocket [chemical binding]; other site 696125001249 PAS fold; Region: PAS_7; pfam12860 696125001250 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 696125001251 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 696125001252 dimer interface [polypeptide binding]; other site 696125001253 phosphorylation site [posttranslational modification] 696125001254 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 696125001255 ATP binding site [chemical binding]; other site 696125001256 Mg2+ binding site [ion binding]; other site 696125001257 G-X-G motif; other site 696125001258 aminopeptidase N; Provisional; Region: pepN; PRK14015 696125001259 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 696125001260 active site 696125001261 Zn binding site [ion binding]; other site 696125001262 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 696125001263 Fe-S cluster binding site [ion binding]; other site 696125001264 active site 696125001265 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 696125001266 substrate binding site [chemical binding]; other site 696125001267 dimer interface [polypeptide binding]; other site 696125001268 ATP binding site [chemical binding]; other site 696125001269 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 696125001270 thiamine phosphate binding site [chemical binding]; other site 696125001271 active site 696125001272 pyrophosphate binding site [ion binding]; other site 696125001273 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 696125001274 ThiS interaction site; other site 696125001275 putative active site [active] 696125001276 tetramer interface [polypeptide binding]; other site 696125001277 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 696125001278 thiS-thiF/thiG interaction site; other site 696125001279 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 696125001280 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 696125001281 ThiC-associated domain; Region: ThiC-associated; pfam13667 696125001282 ThiC family; Region: ThiC; pfam01964 696125001283 Porin subfamily; Region: Porin_2; pfam02530 696125001284 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 696125001285 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 696125001286 Walker A/P-loop; other site 696125001287 ATP binding site [chemical binding]; other site 696125001288 Q-loop/lid; other site 696125001289 ABC transporter signature motif; other site 696125001290 Walker B; other site 696125001291 D-loop; other site 696125001292 H-loop/switch region; other site 696125001293 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 696125001294 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 696125001295 ABC-ATPase subunit interface; other site 696125001296 dimer interface [polypeptide binding]; other site 696125001297 putative PBP binding regions; other site 696125001298 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 696125001299 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 696125001300 intersubunit interface [polypeptide binding]; other site 696125001301 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 696125001302 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 696125001303 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 696125001304 outer membrane heme receptor 696125001305 outer membrane heme receptor 696125001306 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 696125001307 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 696125001308 RNA/DNA hybrid binding site [nucleotide binding]; other site 696125001309 active site 696125001310 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 696125001311 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 696125001312 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 696125001313 FAD binding domain; Region: FAD_binding_4; pfam01565 696125001314 YcxB-like protein; Region: YcxB; pfam14317 696125001315 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 696125001316 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 696125001317 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 696125001318 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 696125001319 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 696125001320 UbiA prenyltransferase family; Region: UbiA; pfam01040 696125001321 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 696125001322 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 696125001323 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 696125001324 chaperone protein DnaJ; Provisional; Region: PRK14299 696125001325 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 696125001326 HSP70 interaction site [polypeptide binding]; other site 696125001327 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 696125001328 dimer interface [polypeptide binding]; other site 696125001329 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 696125001330 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 696125001331 NAD binding site [chemical binding]; other site 696125001332 homotetramer interface [polypeptide binding]; other site 696125001333 homodimer interface [polypeptide binding]; other site 696125001334 substrate binding site [chemical binding]; other site 696125001335 active site 696125001336 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 696125001337 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 696125001338 Tetramer interface [polypeptide binding]; other site 696125001339 active site 696125001340 FMN-binding site [chemical binding]; other site 696125001341 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 696125001342 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 696125001343 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 696125001344 dimerization interface [polypeptide binding]; other site 696125001345 active site 696125001346 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 696125001347 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 696125001348 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 696125001349 TPP-binding site; other site 696125001350 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 696125001351 PYR/PP interface [polypeptide binding]; other site 696125001352 dimer interface [polypeptide binding]; other site 696125001353 TPP binding site [chemical binding]; other site 696125001354 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 696125001355 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 696125001356 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 696125001357 Methyltransferase domain; Region: Methyltransf_26; pfam13659 696125001358 protease TldD; Provisional; Region: tldD; PRK10735 696125001359 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 696125001360 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 696125001361 UbiA prenyltransferase family; Region: UbiA; pfam01040 696125001362 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 696125001363 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 696125001364 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 696125001365 Ligand Binding Site [chemical binding]; other site 696125001366 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 696125001367 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 696125001368 active site 696125001369 HIGH motif; other site 696125001370 dimer interface [polypeptide binding]; other site 696125001371 KMSKS motif; other site 696125001372 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 696125001373 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 696125001374 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 696125001375 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 696125001376 active site 696125001377 motif I; other site 696125001378 motif II; other site 696125001379 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 696125001380 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 696125001381 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 696125001382 active site 696125001383 Riboflavin kinase; Region: Flavokinase; smart00904 696125001384 flagellar biosynthesis protein FlhA; Reviewed; Region: flhA; PRK12792 696125001385 FHIPEP family; Region: FHIPEP; pfam00771 696125001386 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 696125001387 Rod binding protein; Region: Rod-binding; pfam10135 696125001388 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 696125001389 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 696125001390 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 696125001391 FliG C-terminal domain; Region: FliG_C; pfam01706 696125001392 flagellar motor switch protein FliN; Region: fliN; TIGR02480 696125001393 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 696125001394 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 696125001395 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 696125001396 flagellar motor protein MotA; Validated; Region: PRK09110 696125001397 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 696125001398 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 696125001399 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12642 696125001400 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 696125001401 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 696125001402 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06002 696125001403 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 696125001404 Walker A motif; other site 696125001405 ATP binding site [chemical binding]; other site 696125001406 Walker B motif; other site 696125001407 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06003 696125001408 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 696125001409 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK12782 696125001410 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 696125001411 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 696125001412 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00790 696125001413 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 696125001414 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 696125001415 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 696125001416 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 696125001417 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 696125001418 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 696125001419 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 696125001420 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 696125001421 Uncharacterized conserved protein [Function unknown]; Region: COG3334 696125001422 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 696125001423 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 696125001424 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 696125001425 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 696125001426 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 696125001427 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 696125001428 Autotransporter beta-domain; Region: Autotransporter; smart00869 696125001429 Autotransporter beta-domain; Region: Autotransporter; smart00869 696125001430 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 696125001431 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 696125001432 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 696125001433 Autotransporter beta-domain; Region: Autotransporter; smart00869 696125001434 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 696125001435 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 696125001436 Autotransporter beta-domain; Region: Autotransporter; smart00869 696125001437 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 696125001438 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 696125001439 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 696125001440 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 696125001441 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 696125001442 ligand binding site [chemical binding]; other site 696125001443 chemotaxis protein; Reviewed; Region: PRK12798 696125001444 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 696125001445 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 696125001446 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 696125001447 N-acetyl-D-glucosamine binding site [chemical binding]; other site 696125001448 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 696125001449 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 696125001450 active site 696125001451 dimerization interface [polypeptide binding]; other site 696125001452 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 696125001453 DNA binding site [nucleotide binding] 696125001454 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 696125001455 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 696125001456 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 696125001457 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 696125001458 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 696125001459 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 696125001460 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 696125001461 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 696125001462 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 696125001463 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12793 696125001464 Flagellar protein FlaF; Region: FlaF; pfam07309 696125001465 flagellar biosynthesis repressor FlbT; Reviewed; Region: flbT; PRK00794 696125001466 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06009 696125001467 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 696125001468 flagellar biosynthesis protein FliQ; Reviewed; Region: fliQ; PRK06010 696125001469 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 696125001470 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 696125001471 Walker A/P-loop; other site 696125001472 ATP binding site [chemical binding]; other site 696125001473 Q-loop/lid; other site 696125001474 ABC transporter signature motif; other site 696125001475 Walker B; other site 696125001476 D-loop; other site 696125001477 H-loop/switch region; other site 696125001478 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 696125001479 ABC-ATPase subunit interface; other site 696125001480 dimer interface [polypeptide binding]; other site 696125001481 putative PBP binding regions; other site 696125001482 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 696125001483 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 696125001484 ABC-ATPase subunit interface; other site 696125001485 dimer interface [polypeptide binding]; other site 696125001486 putative PBP binding regions; other site 696125001487 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 696125001488 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 696125001489 putative ligand binding residues [chemical binding]; other site 696125001490 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 696125001491 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 696125001492 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 696125001493 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 696125001494 putative active site [active] 696125001495 putative catalytic site [active] 696125001496 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 696125001497 dimer interface [polypeptide binding]; other site 696125001498 conserved gate region; other site 696125001499 ABC-ATPase subunit interface; other site 696125001500 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 696125001501 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 696125001502 Walker A/P-loop; other site 696125001503 ATP binding site [chemical binding]; other site 696125001504 Q-loop/lid; other site 696125001505 ABC transporter signature motif; other site 696125001506 Walker B; other site 696125001507 D-loop; other site 696125001508 H-loop/switch region; other site 696125001509 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 696125001510 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 696125001511 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 696125001512 Bacterial SH3 domain; Region: SH3_3; pfam08239 696125001513 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 696125001514 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 696125001515 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 696125001516 Uncharacterized conserved protein [Function unknown]; Region: COG2835 696125001517 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 696125001518 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 696125001519 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 696125001520 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 696125001521 lipoyl attachment site [posttranslational modification]; other site 696125001522 glycine dehydrogenase; Provisional; Region: PRK05367 696125001523 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 696125001524 tetramer interface [polypeptide binding]; other site 696125001525 pyridoxal 5'-phosphate binding site [chemical binding]; other site 696125001526 catalytic residue [active] 696125001527 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 696125001528 tetramer interface [polypeptide binding]; other site 696125001529 pyridoxal 5'-phosphate binding site [chemical binding]; other site 696125001530 catalytic residue [active] 696125001531 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 696125001532 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 696125001533 active site 696125001534 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 696125001535 dimer interface [polypeptide binding]; other site 696125001536 substrate binding site [chemical binding]; other site 696125001537 catalytic residues [active] 696125001538 effector protein;Evidence 7 : Gene remnant; Product type f : factor 696125001539 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 696125001540 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 696125001541 N-acetyl-D-glucosamine binding site [chemical binding]; other site 696125001542 catalytic residue [active] 696125001543 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 696125001544 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 696125001545 dimer interface [polypeptide binding]; other site 696125001546 active site 696125001547 catalytic residue [active] 696125001548 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 696125001549 SmpB-tmRNA interface; other site 696125001550 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 696125001551 ligand binding site [chemical binding]; other site 696125001552 active site 696125001553 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 696125001554 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 696125001555 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 696125001556 Zn2+ binding site [ion binding]; other site 696125001557 Mg2+ binding site [ion binding]; other site 696125001558 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 696125001559 synthetase active site [active] 696125001560 NTP binding site [chemical binding]; other site 696125001561 metal binding site [ion binding]; metal-binding site 696125001562 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 696125001563 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 696125001564 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 696125001565 active site 696125001566 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 696125001567 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 696125001568 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 696125001569 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 696125001570 Catalytic site [active] 696125001571 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 696125001572 ribonuclease III; Reviewed; Region: PRK12371 696125001573 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 696125001574 dimerization interface [polypeptide binding]; other site 696125001575 active site 696125001576 metal binding site [ion binding]; metal-binding site 696125001577 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 696125001578 dsRNA binding site [nucleotide binding]; other site 696125001579 GTPase Era; Reviewed; Region: era; PRK00089 696125001580 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 696125001581 G1 box; other site 696125001582 GTP/Mg2+ binding site [chemical binding]; other site 696125001583 Switch I region; other site 696125001584 G2 box; other site 696125001585 Switch II region; other site 696125001586 G3 box; other site 696125001587 G4 box; other site 696125001588 G5 box; other site 696125001589 KH domain; Region: KH_2; pfam07650 696125001590 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 696125001591 Recombination protein O N terminal; Region: RecO_N; pfam11967 696125001592 Recombination protein O C terminal; Region: RecO_C; pfam02565 696125001593 pantoate--beta-alanine ligase; Region: panC; TIGR00018 696125001594 Pantoate-beta-alanine ligase; Region: PanC; cd00560 696125001595 active site 696125001596 ATP-binding site [chemical binding]; other site 696125001597 pantoate-binding site; other site 696125001598 HXXH motif; other site 696125001599 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 696125001600 oligomerization interface [polypeptide binding]; other site 696125001601 active site 696125001602 metal binding site [ion binding]; metal-binding site 696125001603 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 696125001604 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 696125001605 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 696125001606 dihydroorotase; Validated; Region: PRK09060 696125001607 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 696125001608 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 696125001609 active site 696125001610 Protein of unknown function (DUF2385); Region: DUF2385; pfam09539 696125001611 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 696125001612 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 696125001613 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 696125001614 active site 696125001615 HIGH motif; other site 696125001616 nucleotide binding site [chemical binding]; other site 696125001617 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 696125001618 KMSKS motif; other site 696125001619 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 696125001620 Predicted membrane protein [Function unknown]; Region: COG2323 696125001621 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 696125001622 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 696125001623 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 696125001624 Walker A/P-loop; other site 696125001625 ATP binding site [chemical binding]; other site 696125001626 Q-loop/lid; other site 696125001627 ABC transporter signature motif; other site 696125001628 Walker B; other site 696125001629 D-loop; other site 696125001630 H-loop/switch region; other site 696125001631 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 696125001632 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 696125001633 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 696125001634 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 696125001635 classical (c) SDRs; Region: SDR_c; cd05233 696125001636 NAD(P) binding site [chemical binding]; other site 696125001637 active site 696125001638 amidophosphoribosyltransferase; Provisional; Region: PRK09123 696125001639 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 696125001640 active site 696125001641 tetramer interface [polypeptide binding]; other site 696125001642 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 696125001643 active site 696125001644 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 696125001645 Colicin V production protein; Region: Colicin_V; pfam02674 696125001646 DNA repair protein RadA; Provisional; Region: PRK11823 696125001647 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 696125001648 Walker A motif/ATP binding site; other site 696125001649 ATP binding site [chemical binding]; other site 696125001650 Walker B motif; other site 696125001651 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 696125001652 replicative DNA helicase; Provisional; Region: PRK09165 696125001653 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 696125001654 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 696125001655 Walker A motif; other site 696125001656 ATP binding site [chemical binding]; other site 696125001657 Walker B motif; other site 696125001658 DNA binding loops [nucleotide binding] 696125001659 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 696125001660 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 696125001661 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 696125001662 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 696125001663 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 696125001664 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 696125001665 active site 696125001666 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 696125001667 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 696125001668 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 696125001669 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 696125001670 NAD(P) binding site [chemical binding]; other site 696125001671 homotetramer interface [polypeptide binding]; other site 696125001672 homodimer interface [polypeptide binding]; other site 696125001673 active site 696125001674 acyl carrier protein; Provisional; Region: acpP; PRK00982 696125001675 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 696125001676 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 696125001677 dimer interface [polypeptide binding]; other site 696125001678 active site 696125001679 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 696125001680 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 696125001681 dimerization interface [polypeptide binding]; other site 696125001682 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 696125001683 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 696125001684 catalytic site [active] 696125001685 G-X2-G-X-G-K; other site 696125001686 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 696125001687 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 696125001688 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 696125001689 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 696125001690 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 696125001691 SurA N-terminal domain; Region: SurA_N; pfam09312 696125001692 OstA-like protein; Region: OstA; cl00844 696125001693 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 696125001694 OstA-like protein; Region: OstA; cl00844 696125001695 Organic solvent tolerance protein; Region: OstA_C; pfam04453 696125001696 Predicted permeases [General function prediction only]; Region: COG0795 696125001697 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 696125001698 Predicted permeases [General function prediction only]; Region: COG0795 696125001699 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 696125001700 DNA polymerase III subunit chi; Validated; Region: PRK05728 696125001701 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 696125001702 metabolite-proton symporter; Region: 2A0106; TIGR00883 696125001703 putative substrate translocation pore; other site 696125001704 effector protein;Evidence 7 : Gene remnant; Product type f : factor 696125001705 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 696125001706 Autotransporter beta-domain; Region: Autotransporter; smart00869 696125001707 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 696125001708 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 696125001709 Autotransporter beta-domain; Region: Autotransporter; smart00869 696125001710 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 696125001711 Autotransporter beta-domain; Region: Autotransporter; smart00869 696125001712 potential frameshift: common BLAST hit: gi|225852212|ref|YP_002732445.1| ATP-binding protein 696125001713 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 696125001714 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 696125001715 Walker A/P-loop; other site 696125001716 ATP binding site [chemical binding]; other site 696125001717 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 696125001718 active site 696125001719 multimer interface [polypeptide binding]; other site 696125001720 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 696125001721 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 696125001722 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 696125001723 GIY-YIG motif/motif A; other site 696125001724 active site 696125001725 catalytic site [active] 696125001726 putative DNA binding site [nucleotide binding]; other site 696125001727 metal binding site [ion binding]; metal-binding site 696125001728 UvrB/uvrC motif; Region: UVR; pfam02151 696125001729 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 696125001730 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 696125001731 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 696125001732 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 696125001733 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 696125001734 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 696125001735 Transporter associated domain; Region: CorC_HlyC; smart01091 696125001736 Predicted integral membrane protein [Function unknown]; Region: COG0392 696125001737 putative cation:proton antiport protein; Provisional; Region: PRK10669 696125001738 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 696125001739 TrkA-N domain; Region: TrkA_N; pfam02254 696125001740 bifunctional preprotein translocase subunit SecD/SecF; Provisional; Region: PRK14726 696125001741 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 696125001742 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 696125001743 Protein export membrane protein; Region: SecD_SecF; pfam02355 696125001744 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 696125001745 Mechanosensitive ion channel; Region: MS_channel; pfam00924 696125001746 ketol-acid reductoisomerase; Provisional; Region: PRK05479 696125001747 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 696125001748 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 696125001749 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 696125001750 Spore germination protein; Region: Spore_permease; cl17796 696125001751 SurA N-terminal domain; Region: SurA_N_3; cl07813 696125001752 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 696125001753 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 696125001754 triosephosphate isomerase; Provisional; Region: PRK14565 696125001755 substrate binding site [chemical binding]; other site 696125001756 dimer interface [polypeptide binding]; other site 696125001757 catalytic triad [active] 696125001758 Preprotein translocase SecG subunit; Region: SecG; pfam03840 696125001759 CTP synthetase; Validated; Region: pyrG; PRK05380 696125001760 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 696125001761 Catalytic site [active] 696125001762 active site 696125001763 UTP binding site [chemical binding]; other site 696125001764 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 696125001765 active site 696125001766 putative oxyanion hole; other site 696125001767 catalytic triad [active] 696125001768 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 696125001769 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 696125001770 enolase; Provisional; Region: eno; PRK00077 696125001771 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 696125001772 dimer interface [polypeptide binding]; other site 696125001773 metal binding site [ion binding]; metal-binding site 696125001774 substrate binding pocket [chemical binding]; other site 696125001775 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 696125001776 Septum formation initiator; Region: DivIC; pfam04977 696125001777 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 696125001778 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 696125001779 tetramer interface [polypeptide binding]; other site 696125001780 TPP-binding site [chemical binding]; other site 696125001781 heterodimer interface [polypeptide binding]; other site 696125001782 phosphorylation loop region [posttranslational modification] 696125001783 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 696125001784 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 696125001785 E3 interaction surface; other site 696125001786 lipoyl attachment site [posttranslational modification]; other site 696125001787 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 696125001788 alpha subunit interface [polypeptide binding]; other site 696125001789 TPP binding site [chemical binding]; other site 696125001790 heterodimer interface [polypeptide binding]; other site 696125001791 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 696125001792 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 696125001793 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 696125001794 E3 interaction surface; other site 696125001795 lipoyl attachment site [posttranslational modification]; other site 696125001796 e3 binding domain; Region: E3_binding; pfam02817 696125001797 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 696125001798 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 696125001799 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 696125001800 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 696125001801 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 696125001802 lipoyl synthase; Provisional; Region: PRK05481 696125001803 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 696125001804 FeS/SAM binding site; other site 696125001805 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 696125001806 putative coenzyme Q binding site [chemical binding]; other site 696125001807 Competence-damaged protein; Region: CinA; pfam02464 696125001808 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 696125001809 substrate binding site; other site 696125001810 dimer interface; other site 696125001811 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 696125001812 homotrimer interaction site [polypeptide binding]; other site 696125001813 zinc binding site [ion binding]; other site 696125001814 CDP-binding sites; other site 696125001815 iron-responsive transcriptional regulator; Reviewed; Region: rirA; PRK11920 696125001816 Rrf2 family protein; Region: rrf2_super; TIGR00738 696125001817 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 696125001818 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 696125001819 dimerization interface [polypeptide binding]; other site 696125001820 PAS domain; Region: PAS; smart00091 696125001821 putative active site [active] 696125001822 heme pocket [chemical binding]; other site 696125001823 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 696125001824 dimer interface [polypeptide binding]; other site 696125001825 phosphorylation site [posttranslational modification] 696125001826 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 696125001827 ATP binding site [chemical binding]; other site 696125001828 Mg2+ binding site [ion binding]; other site 696125001829 G-X-G motif; other site 696125001830 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 696125001831 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 696125001832 active site 696125001833 phosphorylation site [posttranslational modification] 696125001834 intermolecular recognition site; other site 696125001835 dimerization interface [polypeptide binding]; other site 696125001836 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 696125001837 Walker A motif; other site 696125001838 ATP binding site [chemical binding]; other site 696125001839 Walker B motif; other site 696125001840 arginine finger; other site 696125001841 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 696125001842 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 696125001843 TrkA-N domain; Region: TrkA_N; pfam02254 696125001844 TrkA-C domain; Region: TrkA_C; pfam02080 696125001845 TrkA-N domain; Region: TrkA_N; pfam02254 696125001846 TrkA-C domain; Region: TrkA_C; pfam02080 696125001847 Capsular polysaccharide synthesis protein; Region: Caps_synth; pfam05704 696125001848 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 696125001849 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 696125001850 oligomer interface [polypeptide binding]; other site 696125001851 active site residues [active] 696125001852 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 696125001853 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 696125001854 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 696125001855 Walker A motif; other site 696125001856 ATP binding site [chemical binding]; other site 696125001857 Walker B motif; other site 696125001858 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 696125001859 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 696125001860 Found in ATP-dependent protease La (LON); Region: LON; smart00464 696125001861 Found in ATP-dependent protease La (LON); Region: LON; smart00464 696125001862 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 696125001863 Walker A motif; other site 696125001864 ATP binding site [chemical binding]; other site 696125001865 Walker B motif; other site 696125001866 arginine finger; other site 696125001867 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 696125001868 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 696125001869 IHF dimer interface [polypeptide binding]; other site 696125001870 IHF - DNA interface [nucleotide binding]; other site 696125001871 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 696125001872 Glucose inhibited division protein A; Region: GIDA; pfam01134 696125001873 trigger factor; Provisional; Region: tig; PRK01490 696125001874 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 696125001875 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 696125001876 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 696125001877 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 696125001878 GatB domain; Region: GatB_Yqey; smart00845 696125001879 NADH dehydrogenase; Validated; Region: PRK08183 696125001880 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 696125001881 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 696125001882 hypothetical protein; Provisional; Region: PRK06518 696125001883 Staphylococcal nuclease homologues; Region: SNc; smart00318 696125001884 Catalytic site; other site 696125001885 TrbC/VIRB2 family; Region: TrbC; pfam04956 696125001886 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 696125001887 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 696125001888 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 696125001889 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 696125001890 VirB8 protein; Region: VirB8; cl01500 696125001891 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 696125001892 VirB7 interaction site; other site 696125001893 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 696125001894 type IV secretion system protein virB11;Evidence 7 : Gene remnant; PubMedId : 12421311, 12727865; Product type e : enzyme 696125001895 Fic/DOC family; Region: Fic; cl00960 696125001896 Fic/DOC family; Region: Fic; cl00960 696125001897 Fic/DOC family; Region: Fic; cl00960 696125001898 Fic/DOC family; Region: Fic; cl00960 696125001899 conjugal transfer coupling protein TraG; Provisional; Region: PRK13822 696125001900 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 696125001901 Walker A motif; other site 696125001902 ATP binding site [chemical binding]; other site 696125001903 Walker B motif; other site 696125001904 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 696125001905 FIC domain binding interface [polypeptide binding]; other site 696125001906 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 696125001907 Fic/DOC family; Region: Fic; cl00960 696125001908 effector protein;Evidence 7 : Gene remnant; Product type f : factor 696125001909 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 696125001910 FIC domain binding interface [polypeptide binding]; other site 696125001911 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 696125001912 FIC domain binding interface [polypeptide binding]; other site 696125001913 Fic/DOC family; Region: Fic; cl00960 696125001914 Fic/DOC family; Region: Fic; cl00960 696125001915 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 696125001916 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 696125001917 Walker A motif; other site 696125001918 hexamer interface [polypeptide binding]; other site 696125001919 ATP binding site [chemical binding]; other site 696125001920 Walker B motif; other site 696125001921 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 696125001922 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 696125001923 VirB7 interaction site; other site 696125001924 VirB8 protein; Region: VirB8; cl01500 696125001925 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 696125001926 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 696125001927 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 696125001928 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 696125001929 TrbC/VIRB2 family; Region: TrbC; pfam04956 696125001930 hypothetical protein; Provisional; Region: PRK06518 696125001931 Staphylococcal nuclease homologues; Region: SNc; smart00318 696125001932 Catalytic site; other site 696125001933 glutamine synthetase; Provisional; Region: glnA; PRK09469 696125001934 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 696125001935 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 696125001936 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 696125001937 Nitrogen regulatory protein P-II; Region: P-II; smart00938 696125001938 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 696125001939 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 696125001940 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 696125001941 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 696125001942 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 696125001943 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 696125001944 dimer interface [polypeptide binding]; other site 696125001945 ssDNA binding site [nucleotide binding]; other site 696125001946 tetramer (dimer of dimers) interface [polypeptide binding]; other site 696125001947 DNA gyrase subunit A; Validated; Region: PRK05560 696125001948 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 696125001949 CAP-like domain; other site 696125001950 active site 696125001951 primary dimer interface [polypeptide binding]; other site 696125001952 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 696125001953 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 696125001954 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 696125001955 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 696125001956 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 696125001957 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 696125001958 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 696125001959 active site 696125001960 (T/H)XGH motif; other site 696125001961 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 696125001962 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 696125001963 active site 696125001964 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 696125001965 active site 696125001966 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 696125001967 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 696125001968 MFS transport protein AraJ; Provisional; Region: PRK10091 696125001969 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 696125001970 putative substrate translocation pore; other site 696125001971 isocitrate dehydrogenase; Validated; Region: PRK08299 696125001972 effector protein;Evidence 7 : Gene remnant; Product type f : factor 696125001973 effector protein;Evidence 7 : Gene remnant; Product type f : factor 696125001974 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 696125001975 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 696125001976 putative active site [active] 696125001977 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 696125001978 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 696125001979 homodimer interface [polypeptide binding]; other site 696125001980 substrate-cofactor binding pocket; other site 696125001981 catalytic residue [active] 696125001982 Sporulation related domain; Region: SPOR; pfam05036 696125001983 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 696125001984 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 696125001985 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 696125001986 active site 696125001987 HIGH motif; other site 696125001988 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 696125001989 KMSK motif region; other site 696125001990 tRNA binding surface [nucleotide binding]; other site 696125001991 DALR anticodon binding domain; Region: DALR_1; smart00836 696125001992 anticodon binding site; other site 696125001993 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 696125001994 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 696125001995 Zn2+ binding site [ion binding]; other site 696125001996 Mg2+ binding site [ion binding]; other site 696125001997 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 696125001998 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 696125001999 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 696125002000 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 696125002001 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 696125002002 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 696125002003 Substrate binding site; other site 696125002004 Mg++ binding site; other site 696125002005 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 696125002006 active site 696125002007 substrate binding site [chemical binding]; other site 696125002008 CoA binding site [chemical binding]; other site 696125002009 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 696125002010 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 696125002011 glutaminase active site [active] 696125002012 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 696125002013 dimer interface [polypeptide binding]; other site 696125002014 active site 696125002015 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 696125002016 dimer interface [polypeptide binding]; other site 696125002017 active site 696125002018 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 696125002019 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 696125002020 generic binding surface II; other site 696125002021 ssDNA binding site; other site 696125002022 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 696125002023 ATP binding site [chemical binding]; other site 696125002024 putative Mg++ binding site [ion binding]; other site 696125002025 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 696125002026 nucleotide binding region [chemical binding]; other site 696125002027 ATP-binding site [chemical binding]; other site 696125002028 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 696125002029 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 696125002030 putative active site [active] 696125002031 putative PHP Thumb interface [polypeptide binding]; other site 696125002032 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 696125002033 generic binding surface II; other site 696125002034 generic binding surface I; other site 696125002035 salicylate hydroxylase; Provisional; Region: PRK06475 696125002036 salicylate hydroxylase; Provisional; Region: PRK08163 696125002037 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 696125002038 polyphosphate kinase; Provisional; Region: PRK05443 696125002039 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 696125002040 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 696125002041 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 696125002042 putative domain interface [polypeptide binding]; other site 696125002043 putative active site [active] 696125002044 catalytic site [active] 696125002045 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 696125002046 putative domain interface [polypeptide binding]; other site 696125002047 putative active site [active] 696125002048 catalytic site [active] 696125002049 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 696125002050 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 696125002051 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 696125002052 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 696125002053 catalytic site [active] 696125002054 putative active site [active] 696125002055 putative substrate binding site [chemical binding]; other site 696125002056 HRDC domain; Region: HRDC; pfam00570 696125002057 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 696125002058 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 696125002059 dimer interface [polypeptide binding]; other site 696125002060 anticodon binding site; other site 696125002061 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 696125002062 homodimer interface [polypeptide binding]; other site 696125002063 motif 1; other site 696125002064 active site 696125002065 motif 2; other site 696125002066 GAD domain; Region: GAD; pfam02938 696125002067 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 696125002068 active site 696125002069 motif 3; other site 696125002070 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 696125002071 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 696125002072 CAP-like domain; other site 696125002073 active site 696125002074 primary dimer interface [polypeptide binding]; other site 696125002075 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 696125002076 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 696125002077 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 696125002078 putative substrate translocation pore; other site 696125002079 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 696125002080 putative GSH binding site [chemical binding]; other site 696125002081 catalytic residues [active] 696125002082 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 696125002083 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 696125002084 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 696125002085 dimerization interface [polypeptide binding]; other site 696125002086 ATP binding site [chemical binding]; other site 696125002087 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 696125002088 dimerization interface [polypeptide binding]; other site 696125002089 ATP binding site [chemical binding]; other site 696125002090 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 696125002091 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 696125002092 putative active site [active] 696125002093 catalytic triad [active] 696125002094 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 696125002095 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 696125002096 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 696125002097 ATP binding site [chemical binding]; other site 696125002098 active site 696125002099 substrate binding site [chemical binding]; other site 696125002100 Serine hydrolase; Region: Ser_hydrolase; pfam06821 696125002101 adenylosuccinate lyase; Provisional; Region: PRK07492 696125002102 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 696125002103 tetramer interface [polypeptide binding]; other site 696125002104 active site 696125002105 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 696125002106 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 696125002107 substrate binding site [chemical binding]; other site 696125002108 hexamer interface [polypeptide binding]; other site 696125002109 metal binding site [ion binding]; metal-binding site 696125002110 Flavin Reductases; Region: FlaRed; cl00801 696125002111 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 696125002112 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 696125002113 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 696125002114 putative active site [active] 696125002115 heme pocket [chemical binding]; other site 696125002116 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 696125002117 dimer interface [polypeptide binding]; other site 696125002118 phosphorylation site [posttranslational modification] 696125002119 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 696125002120 ATP binding site [chemical binding]; other site 696125002121 Mg2+ binding site [ion binding]; other site 696125002122 G-X-G motif; other site 696125002123 Response regulator receiver domain; Region: Response_reg; pfam00072 696125002124 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 696125002125 active site 696125002126 phosphorylation site [posttranslational modification] 696125002127 intermolecular recognition site; other site 696125002128 dimerization interface [polypeptide binding]; other site 696125002129 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 696125002130 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 696125002131 active site 696125002132 substrate binding site [chemical binding]; other site 696125002133 cosubstrate binding site; other site 696125002134 catalytic site [active] 696125002135 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 696125002136 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 696125002137 dimerization interface [polypeptide binding]; other site 696125002138 putative ATP binding site [chemical binding]; other site 696125002139 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 696125002140 Domain of unknown function DUF20; Region: UPF0118; pfam01594 696125002141 hypothetical protein; Validated; Region: PRK09087 696125002142 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 696125002143 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 696125002144 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 696125002145 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 696125002146 active site 696125002147 phosphorylation site [posttranslational modification] 696125002148 intermolecular recognition site; other site 696125002149 dimerization interface [polypeptide binding]; other site 696125002150 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 696125002151 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 696125002152 23S rRNA interface [nucleotide binding]; other site 696125002153 L3 interface [polypeptide binding]; other site 696125002154 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 696125002155 DHH family; Region: DHH; pfam01368 696125002156 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 696125002157 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 696125002158 ATP binding site [chemical binding]; other site 696125002159 Mg2+ binding site [ion binding]; other site 696125002160 G-X-G motif; other site 696125002161 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 696125002162 anchoring element; other site 696125002163 dimer interface [polypeptide binding]; other site 696125002164 ATP binding site [chemical binding]; other site 696125002165 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 696125002166 active site 696125002167 metal binding site [ion binding]; metal-binding site 696125002168 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 696125002169 lipoate-protein ligase B; Provisional; Region: PRK14341 696125002170 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 696125002171 Repair protein; Region: Repair_PSII; pfam04536 696125002172 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 696125002173 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 696125002174 NADH dehydrogenase subunit B; Validated; Region: PRK06411 696125002175 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 696125002176 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 696125002177 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 696125002178 NADH dehydrogenase subunit D; Validated; Region: PRK06075 696125002179 NADH dehydrogenase subunit E; Validated; Region: PRK07539 696125002180 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 696125002181 putative dimer interface [polypeptide binding]; other site 696125002182 [2Fe-2S] cluster binding site [ion binding]; other site 696125002183 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 696125002184 SLBB domain; Region: SLBB; pfam10531 696125002185 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 696125002186 NADH dehydrogenase subunit G; Validated; Region: PRK09130 696125002187 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 696125002188 catalytic loop [active] 696125002189 iron binding site [ion binding]; other site 696125002190 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 696125002191 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 696125002192 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 696125002193 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 696125002194 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 696125002195 4Fe-4S binding domain; Region: Fer4; pfam00037 696125002196 4Fe-4S binding domain; Region: Fer4; pfam00037 696125002197 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 696125002198 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 696125002199 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 696125002200 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 696125002201 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 696125002202 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 696125002203 NADH dehydrogenase subunit 5 C-terminus; Region: NADH5_C; pfam06455 696125002204 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 696125002205 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 696125002206 NADH dehydrogenase subunit 2; Provisional; Region: ND2; MTH00196 696125002207 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 696125002208 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 696125002209 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 696125002210 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 696125002211 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 696125002212 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 696125002213 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 696125002214 prolyl-tRNA synthetase; Provisional; Region: PRK12325 696125002215 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 696125002216 dimer interface [polypeptide binding]; other site 696125002217 motif 1; other site 696125002218 active site 696125002219 motif 2; other site 696125002220 motif 3; other site 696125002221 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 696125002222 anticodon binding site; other site 696125002223 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 696125002224 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 696125002225 FtsX-like permease family; Region: FtsX; pfam02687 696125002226 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 696125002227 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 696125002228 Walker A/P-loop; other site 696125002229 ATP binding site [chemical binding]; other site 696125002230 Q-loop/lid; other site 696125002231 ABC transporter signature motif; other site 696125002232 Walker B; other site 696125002233 D-loop; other site 696125002234 H-loop/switch region; other site 696125002235 Uncharacterized conserved protein [Function unknown]; Region: COG2938 696125002236 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 696125002237 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 696125002238 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 696125002239 ATP binding site [chemical binding]; other site 696125002240 putative Mg++ binding site [ion binding]; other site 696125002241 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 696125002242 nucleotide binding region [chemical binding]; other site 696125002243 ATP-binding site [chemical binding]; other site 696125002244 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 696125002245 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 696125002246 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 696125002247 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 696125002248 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 696125002249 RNA binding site [nucleotide binding]; other site 696125002250 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 696125002251 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 696125002252 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 696125002253 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 696125002254 active site 696125002255 metal binding site [ion binding]; metal-binding site 696125002256 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 696125002257 Transglycosylase; Region: Transgly; pfam00912 696125002258 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 696125002259 peptide chain release factor 2; Provisional; Region: PRK07342 696125002260 This domain is found in peptide chain release factors; Region: PCRF; smart00937 696125002261 RF-1 domain; Region: RF-1; pfam00472 696125002262 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 696125002263 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 696125002264 catalytic triad [active] 696125002265 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 696125002266 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 696125002267 active site 696125002268 HIGH motif; other site 696125002269 dimer interface [polypeptide binding]; other site 696125002270 KMSKS motif; other site 696125002271 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 696125002272 RNA binding surface [nucleotide binding]; other site 696125002273 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 696125002274 hypothetical protein; Reviewed; Region: PRK00024 696125002275 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 696125002276 MPN+ (JAMM) motif; other site 696125002277 Zinc-binding site [ion binding]; other site 696125002278 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 696125002279 active site 696125002280 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 696125002281 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 696125002282 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 696125002283 glutamate racemase; Provisional; Region: PRK00865 696125002284 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 696125002285 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 696125002286 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 696125002287 RNA binding surface [nucleotide binding]; other site 696125002288 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 696125002289 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 696125002290 Ligand Binding Site [chemical binding]; other site 696125002291 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 696125002292 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 696125002293 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 696125002294 FeS/SAM binding site; other site 696125002295 LexA repressor; Validated; Region: PRK00215 696125002296 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 696125002297 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 696125002298 Catalytic site [active] 696125002299 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 696125002300 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 696125002301 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 696125002302 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 696125002303 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 696125002304 thymidylate kinase; Validated; Region: tmk; PRK00698 696125002305 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 696125002306 TMP-binding site; other site 696125002307 ATP-binding site [chemical binding]; other site 696125002308 DNA polymerase III subunit delta'; Validated; Region: PRK09112 696125002309 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 696125002310 Walker A motif; other site 696125002311 ATP binding site [chemical binding]; other site 696125002312 Walker B motif; other site 696125002313 arginine finger; other site 696125002314 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 696125002315 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 696125002316 active site 696125002317 HIGH motif; other site 696125002318 KMSKS motif; other site 696125002319 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 696125002320 tRNA binding surface [nucleotide binding]; other site 696125002321 anticodon binding site; other site 696125002322 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 696125002323 active site 696125002324 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 696125002325 putative hydrolase; Provisional; Region: PRK02113 696125002326 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 696125002327 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 696125002328 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 696125002329 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 696125002330 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 696125002331 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 696125002332 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 696125002333 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 696125002334 catalytic residue [active] 696125002335 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 696125002336 FeS assembly protein SufD; Region: sufD; TIGR01981 696125002337 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 696125002338 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 696125002339 Walker A/P-loop; other site 696125002340 ATP binding site [chemical binding]; other site 696125002341 Q-loop/lid; other site 696125002342 ABC transporter signature motif; other site 696125002343 Walker B; other site 696125002344 D-loop; other site 696125002345 H-loop/switch region; other site 696125002346 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 696125002347 putative ABC transporter; Region: ycf24; CHL00085 696125002348 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 696125002349 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 696125002350 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 696125002351 catalytic residue [active] 696125002352 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 696125002353 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 696125002354 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 696125002355 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 696125002356 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 696125002357 DNA-binding site [nucleotide binding]; DNA binding site 696125002358 RNA-binding motif; other site 696125002359 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 696125002360 DNA-binding site [nucleotide binding]; DNA binding site 696125002361 RNA-binding motif; other site 696125002362 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 696125002363 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 696125002364 putative ligand binding site [chemical binding]; other site 696125002365 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 696125002366 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 696125002367 TM-ABC transporter signature motif; other site 696125002368 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 696125002369 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 696125002370 TM-ABC transporter signature motif; other site 696125002371 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 696125002372 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 696125002373 Walker A/P-loop; other site 696125002374 ATP binding site [chemical binding]; other site 696125002375 Q-loop/lid; other site 696125002376 ABC transporter signature motif; other site 696125002377 Walker B; other site 696125002378 D-loop; other site 696125002379 H-loop/switch region; other site 696125002380 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 696125002381 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 696125002382 Walker A/P-loop; other site 696125002383 ATP binding site [chemical binding]; other site 696125002384 Q-loop/lid; other site 696125002385 ABC transporter signature motif; other site 696125002386 Walker B; other site 696125002387 D-loop; other site 696125002388 H-loop/switch region; other site 696125002389 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 696125002390 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 696125002391 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 696125002392 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 696125002393 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 696125002394 active site 696125002395 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 696125002396 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 696125002397 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 696125002398 dihydroorotase; Validated; Region: PRK09059 696125002399 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 696125002400 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 696125002401 active site 696125002402 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 696125002403 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 696125002404 DNA protecting protein DprA; Region: dprA; TIGR00732 696125002405 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 696125002406 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 696125002407 active site 696125002408 interdomain interaction site; other site 696125002409 putative metal-binding site [ion binding]; other site 696125002410 nucleotide binding site [chemical binding]; other site 696125002411 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 696125002412 domain I; other site 696125002413 DNA binding groove [nucleotide binding] 696125002414 phosphate binding site [ion binding]; other site 696125002415 domain II; other site 696125002416 domain III; other site 696125002417 nucleotide binding site [chemical binding]; other site 696125002418 catalytic site [active] 696125002419 domain IV; other site 696125002420 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 696125002421 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 696125002422 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 696125002423 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 696125002424 ribonuclease R; Region: RNase_R; TIGR02063 696125002425 RNB domain; Region: RNB; pfam00773 696125002426 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 696125002427 RNA binding site [nucleotide binding]; other site 696125002428 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 696125002429 Major Facilitator Superfamily; Region: MFS_1; pfam07690 696125002430 putative substrate translocation pore; other site 696125002431 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 696125002432 fumarate hydratase; Provisional; Region: PRK15389 696125002433 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 696125002434 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 696125002435 Catalytic site; other site 696125002436 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 696125002437 ligand binding site [chemical binding]; other site 696125002438 active site 696125002439 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 696125002440 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 696125002441 putative dimer interface [polypeptide binding]; other site 696125002442 active site pocket [active] 696125002443 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 696125002444 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 696125002445 FMN binding site [chemical binding]; other site 696125002446 active site 696125002447 catalytic residues [active] 696125002448 substrate binding site [chemical binding]; other site 696125002449 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 696125002450 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 696125002451 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 696125002452 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 696125002453 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 696125002454 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 696125002455 carboxyltransferase (CT) interaction site; other site 696125002456 biotinylation site [posttranslational modification]; other site 696125002457 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 696125002458 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 696125002459 catalytic residues [active] 696125002460 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 696125002461 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 696125002462 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 696125002463 amidase catalytic site [active] 696125002464 Zn binding residues [ion binding]; other site 696125002465 substrate binding site [chemical binding]; other site 696125002466 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 696125002467 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 696125002468 homodecamer interface [polypeptide binding]; other site 696125002469 GTP cyclohydrolase I; Provisional; Region: PLN03044 696125002470 active site 696125002471 putative catalytic site residues [active] 696125002472 zinc binding site [ion binding]; other site 696125002473 GTP-CH-I/GFRP interaction surface; other site 696125002474 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 696125002475 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 696125002476 trimerization site [polypeptide binding]; other site 696125002477 active site 696125002478 hypothetical protein; Validated; Region: PRK00041 696125002479 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 696125002480 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 696125002481 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 696125002482 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 696125002483 active site 696125002484 dimer interface [polypeptide binding]; other site 696125002485 motif 1; other site 696125002486 motif 2; other site 696125002487 motif 3; other site 696125002488 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 696125002489 anticodon binding site; other site 696125002490 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 696125002491 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 696125002492 DNA binding residues [nucleotide binding] 696125002493 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 696125002494 IHF dimer interface [polypeptide binding]; other site 696125002495 IHF - DNA interface [nucleotide binding]; other site 696125002496 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 696125002497 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 696125002498 dimer interface [polypeptide binding]; other site 696125002499 active site 696125002500 CoA binding pocket [chemical binding]; other site 696125002501 putative phosphate acyltransferase; Provisional; Region: PRK05331 696125002502 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 696125002503 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 696125002504 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 696125002505 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 696125002506 putative RNA binding site [nucleotide binding]; other site 696125002507 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 696125002508 homopentamer interface [polypeptide binding]; other site 696125002509 active site 696125002510 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 696125002511 Lumazine binding domain; Region: Lum_binding; pfam00677 696125002512 Lumazine binding domain; Region: Lum_binding; pfam00677 696125002513 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 696125002514 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 696125002515 catalytic motif [active] 696125002516 Zn binding site [ion binding]; other site 696125002517 RibD C-terminal domain; Region: RibD_C; cl17279 696125002518 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 696125002519 ATP cone domain; Region: ATP-cone; pfam03477 696125002520 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 696125002521 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 696125002522 dimer interface [polypeptide binding]; other site 696125002523 active site 696125002524 glycine-pyridoxal phosphate binding site [chemical binding]; other site 696125002525 folate binding site [chemical binding]; other site 696125002526 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 696125002527 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 696125002528 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 696125002529 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 696125002530 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 696125002531 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 696125002532 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 696125002533 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 696125002534 HflX GTPase family; Region: HflX; cd01878 696125002535 G1 box; other site 696125002536 GTP/Mg2+ binding site [chemical binding]; other site 696125002537 Switch I region; other site 696125002538 G2 box; other site 696125002539 G3 box; other site 696125002540 Switch II region; other site 696125002541 G4 box; other site 696125002542 G5 box; other site 696125002543 bacterial Hfq-like; Region: Hfq; cd01716 696125002544 hexamer interface [polypeptide binding]; other site 696125002545 Sm1 motif; other site 696125002546 RNA binding site [nucleotide binding]; other site 696125002547 Sm2 motif; other site 696125002548 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 696125002549 malic enzyme; Reviewed; Region: PRK12862 696125002550 Malic enzyme, N-terminal domain; Region: malic; pfam00390 696125002551 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 696125002552 putative NAD(P) binding site [chemical binding]; other site 696125002553 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 696125002554 acyl carrier protein; Provisional; Region: PRK06508 696125002555 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 696125002556 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 696125002557 active site 696125002558 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 696125002559 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 696125002560 dimer interface [polypeptide binding]; other site 696125002561 active site 696125002562 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 696125002563 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 696125002564 NAD(P) binding site [chemical binding]; other site 696125002565 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 696125002566 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 696125002567 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 696125002568 putative acyl-acceptor binding pocket; other site 696125002571 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 696125002572 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 696125002573 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 696125002574 putative dimer interface [polypeptide binding]; other site 696125002575 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 696125002576 Response regulator receiver domain; Region: Response_reg; pfam00072 696125002577 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 696125002578 active site 696125002579 phosphorylation site [posttranslational modification] 696125002580 intermolecular recognition site; other site 696125002581 dimerization interface [polypeptide binding]; other site 696125002582 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 696125002583 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 696125002584 active sites [active] 696125002585 tetramer interface [polypeptide binding]; other site 696125002586 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 696125002587 ATP-NAD kinase; Region: NAD_kinase; pfam01513 696125002588 helicase 45; Provisional; Region: PTZ00424 696125002589 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 696125002590 ATP binding site [chemical binding]; other site 696125002591 Mg++ binding site [ion binding]; other site 696125002592 motif III; other site 696125002593 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 696125002594 nucleotide binding region [chemical binding]; other site 696125002595 ATP-binding site [chemical binding]; other site 696125002596 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 696125002597 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 696125002598 active site 696125002599 HIGH motif; other site 696125002600 nucleotide binding site [chemical binding]; other site 696125002601 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 696125002602 active site 696125002603 KMSKS motif; other site 696125002604 NAD synthetase; Provisional; Region: PRK13981 696125002605 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 696125002606 multimer interface [polypeptide binding]; other site 696125002607 active site 696125002608 catalytic triad [active] 696125002609 protein interface 1 [polypeptide binding]; other site 696125002610 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 696125002611 homodimer interface [polypeptide binding]; other site 696125002612 NAD binding pocket [chemical binding]; other site 696125002613 ATP binding pocket [chemical binding]; other site 696125002614 Mg binding site [ion binding]; other site 696125002615 active-site loop [active] 696125002616 phospho-2-dehydro-3-deoxyheptonate aldolase 696125002617 phospho-2-dehydro-3-deoxyheptonate aldolase 696125002618 glutathione reductase; Validated; Region: PRK06116 696125002619 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 696125002620 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 696125002621 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 696125002622 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 696125002623 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 696125002624 tetramer (dimer of dimers) interface [polypeptide binding]; other site 696125002625 active site 696125002626 dimer interface [polypeptide binding]; other site 696125002627 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 696125002628 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 696125002629 heme binding site [chemical binding]; other site 696125002630 ferroxidase pore; other site 696125002631 ferroxidase diiron center [ion binding]; other site 696125002632 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 696125002633 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 696125002634 Competence protein; Region: Competence; pfam03772 696125002635 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 696125002636 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 696125002637 active site 696125002638 HIGH motif; other site 696125002639 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 696125002640 active site 696125002641 KMSKS motif; other site 696125002642 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 696125002643 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 696125002644 dimer interface [polypeptide binding]; other site 696125002645 active site 696125002646 citrylCoA binding site [chemical binding]; other site 696125002647 NADH binding [chemical binding]; other site 696125002648 cationic pore residues; other site 696125002649 oxalacetate/citrate binding site [chemical binding]; other site 696125002650 coenzyme A binding site [chemical binding]; other site 696125002651 catalytic triad [active] 696125002652 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 696125002653 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 696125002654 substrate binding pocket [chemical binding]; other site 696125002655 membrane-bound complex binding site; other site 696125002656 hinge residues; other site 696125002657 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 696125002658 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 696125002659 dimer interface [polypeptide binding]; other site 696125002660 conserved gate region; other site 696125002661 putative PBP binding loops; other site 696125002662 ABC-ATPase subunit interface; other site 696125002663 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 696125002664 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 696125002665 dimer interface [polypeptide binding]; other site 696125002666 conserved gate region; other site 696125002667 putative PBP binding loops; other site 696125002668 ABC-ATPase subunit interface; other site 696125002669 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 696125002670 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 696125002671 Walker A/P-loop; other site 696125002672 ATP binding site [chemical binding]; other site 696125002673 Q-loop/lid; other site 696125002674 ABC transporter signature motif; other site 696125002675 Walker B; other site 696125002676 D-loop; other site 696125002677 H-loop/switch region; other site 696125002678 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 696125002679 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 696125002680 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3494 696125002681 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 696125002682 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 696125002683 active site 696125002684 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 696125002685 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 696125002686 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 696125002687 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 696125002688 trimer interface [polypeptide binding]; other site 696125002689 active site 696125002690 UDP-GlcNAc binding site [chemical binding]; other site 696125002691 lipid binding site [chemical binding]; lipid-binding site 696125002692 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 696125002693 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 696125002694 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 696125002695 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 696125002696 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 696125002697 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 696125002698 Surface antigen; Region: Bac_surface_Ag; pfam01103 696125002699 RIP metalloprotease RseP; Region: TIGR00054 696125002700 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 696125002701 active site 696125002702 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 696125002703 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 696125002704 putative substrate binding region [chemical binding]; other site 696125002705 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 696125002706 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 696125002707 ribosome recycling factor; Reviewed; Region: frr; PRK00083 696125002708 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 696125002709 hinge region; other site 696125002710 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 696125002711 putative nucleotide binding site [chemical binding]; other site 696125002712 uridine monophosphate binding site [chemical binding]; other site 696125002713 homohexameric interface [polypeptide binding]; other site 696125002714 elongation factor Ts; Provisional; Region: tsf; PRK09377 696125002715 UBA/TS-N domain; Region: UBA; pfam00627 696125002716 Elongation factor TS; Region: EF_TS; pfam00889 696125002717 Elongation factor TS; Region: EF_TS; pfam00889 696125002718 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 696125002719 rRNA interaction site [nucleotide binding]; other site 696125002720 S8 interaction site; other site 696125002721 putative laminin-1 binding site; other site 696125002722 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 696125002723 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_1; cd02199 696125002724 homotrimer interaction site [polypeptide binding]; other site 696125002725 putative active site [active] 696125002726 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 696125002727 HIT family signature motif; other site 696125002728 catalytic residue [active] 696125002729 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 696125002730 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 696125002731 Sporulation related domain; Region: SPOR; pfam05036 696125002732 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 696125002733 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 696125002734 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 696125002735 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 696125002736 putative FMN binding site [chemical binding]; other site 696125002737 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 696125002738 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 696125002739 DNA binding residues [nucleotide binding] 696125002740 putative dimer interface [polypeptide binding]; other site 696125002741 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 696125002742 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 696125002743 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 696125002744 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 696125002745 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 696125002746 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 696125002747 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 696125002748 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 696125002749 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 696125002750 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 696125002751 DNA binding site [nucleotide binding] 696125002752 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 696125002753 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 696125002754 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 696125002755 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 696125002756 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 696125002757 RPB11 interaction site [polypeptide binding]; other site 696125002758 RPB12 interaction site [polypeptide binding]; other site 696125002759 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 696125002760 RPB3 interaction site [polypeptide binding]; other site 696125002761 RPB1 interaction site [polypeptide binding]; other site 696125002762 RPB11 interaction site [polypeptide binding]; other site 696125002763 RPB10 interaction site [polypeptide binding]; other site 696125002764 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 696125002765 core dimer interface [polypeptide binding]; other site 696125002766 peripheral dimer interface [polypeptide binding]; other site 696125002767 L10 interface [polypeptide binding]; other site 696125002768 L11 interface [polypeptide binding]; other site 696125002769 putative EF-Tu interaction site [polypeptide binding]; other site 696125002770 putative EF-G interaction site [polypeptide binding]; other site 696125002771 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 696125002772 23S rRNA interface [nucleotide binding]; other site 696125002773 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 696125002774 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 696125002775 mRNA/rRNA interface [nucleotide binding]; other site 696125002776 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 696125002777 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 696125002778 23S rRNA interface [nucleotide binding]; other site 696125002779 L7/L12 interface [polypeptide binding]; other site 696125002780 putative thiostrepton binding site; other site 696125002781 L25 interface [polypeptide binding]; other site 696125002782 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 696125002783 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 696125002784 putative homodimer interface [polypeptide binding]; other site 696125002785 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 696125002786 heterodimer interface [polypeptide binding]; other site 696125002787 homodimer interface [polypeptide binding]; other site 696125002788 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 696125002789 elongation factor Tu; Reviewed; Region: PRK00049 696125002790 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 696125002791 G1 box; other site 696125002792 GEF interaction site [polypeptide binding]; other site 696125002793 GTP/Mg2+ binding site [chemical binding]; other site 696125002794 Switch I region; other site 696125002795 G2 box; other site 696125002796 G3 box; other site 696125002797 Switch II region; other site 696125002798 G4 box; other site 696125002799 G5 box; other site 696125002800 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 696125002801 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 696125002802 Antibiotic Binding Site [chemical binding]; other site 696125002803 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 696125002804 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 696125002805 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 696125002806 ATP12 chaperone protein; Region: ATP12; cl02228 696125002807 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 696125002808 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 696125002809 active site 696125002810 cyclic beta-1,2-glucan ABC transporter; Provisional; Region: PRK13657 696125002811 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 696125002812 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 696125002813 Walker A/P-loop; other site 696125002814 ATP binding site [chemical binding]; other site 696125002815 Q-loop/lid; other site 696125002816 ABC transporter signature motif; other site 696125002817 Walker B; other site 696125002818 D-loop; other site 696125002819 H-loop/switch region; other site 696125002820 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 696125002821 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 696125002822 motif 1; other site 696125002823 active site 696125002824 motif 2; other site 696125002825 motif 3; other site 696125002826 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 696125002827 DHHA1 domain; Region: DHHA1; pfam02272 696125002828 recombinase A; Provisional; Region: recA; PRK09354 696125002829 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 696125002830 hexamer interface [polypeptide binding]; other site 696125002831 Walker A motif; other site 696125002832 ATP binding site [chemical binding]; other site 696125002833 Walker B motif; other site 696125002834 recombination factor protein RarA; Reviewed; Region: PRK13342 696125002835 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 696125002836 Walker A motif; other site 696125002837 ATP binding site [chemical binding]; other site 696125002838 Walker B motif; other site 696125002839 arginine finger; other site 696125002840 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 696125002841 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 696125002842 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 696125002843 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 696125002844 protein binding site [polypeptide binding]; other site 696125002845 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 696125002846 protein binding site [polypeptide binding]; other site 696125002847 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 696125002848 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 696125002849 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 696125002850 alphaNTD homodimer interface [polypeptide binding]; other site 696125002851 alphaNTD - beta interaction site [polypeptide binding]; other site 696125002852 alphaNTD - beta' interaction site [polypeptide binding]; other site 696125002853 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 696125002854 30S ribosomal protein S11; Validated; Region: PRK05309 696125002855 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 696125002856 30S ribosomal protein S13; Region: bact_S13; TIGR03631 696125002857 adenylate kinase; Reviewed; Region: adk; PRK00279 696125002858 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 696125002859 AMP-binding site [chemical binding]; other site 696125002860 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 696125002861 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 696125002862 SecY translocase; Region: SecY; pfam00344 696125002863 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 696125002864 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 696125002865 23S rRNA binding site [nucleotide binding]; other site 696125002866 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 696125002867 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 696125002868 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 696125002869 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 696125002870 5S rRNA interface [nucleotide binding]; other site 696125002871 23S rRNA interface [nucleotide binding]; other site 696125002872 L5 interface [polypeptide binding]; other site 696125002873 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 696125002874 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 696125002875 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 696125002876 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 696125002877 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 696125002878 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 696125002879 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 696125002880 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 696125002881 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 696125002882 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 696125002883 RNA binding site [nucleotide binding]; other site 696125002884 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 696125002885 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 696125002886 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 696125002887 23S rRNA interface [nucleotide binding]; other site 696125002888 putative translocon interaction site; other site 696125002889 signal recognition particle (SRP54) interaction site; other site 696125002890 L23 interface [polypeptide binding]; other site 696125002891 trigger factor interaction site; other site 696125002892 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 696125002893 23S rRNA interface [nucleotide binding]; other site 696125002894 5S rRNA interface [nucleotide binding]; other site 696125002895 putative antibiotic binding site [chemical binding]; other site 696125002896 L25 interface [polypeptide binding]; other site 696125002897 L27 interface [polypeptide binding]; other site 696125002898 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 696125002899 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 696125002900 G-X-X-G motif; other site 696125002901 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 696125002902 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 696125002903 putative translocon binding site; other site 696125002904 protein-rRNA interface [nucleotide binding]; other site 696125002905 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 696125002906 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 696125002907 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 696125002908 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 696125002909 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 696125002910 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 696125002911 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 696125002912 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 696125002913 elongation factor Tu; Reviewed; Region: PRK00049 696125002914 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 696125002915 G1 box; other site 696125002916 GEF interaction site [polypeptide binding]; other site 696125002917 GTP/Mg2+ binding site [chemical binding]; other site 696125002918 Switch I region; other site 696125002919 G2 box; other site 696125002920 G3 box; other site 696125002921 Switch II region; other site 696125002922 G4 box; other site 696125002923 G5 box; other site 696125002924 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 696125002925 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 696125002926 Antibiotic Binding Site [chemical binding]; other site 696125002927 elongation factor G; Reviewed; Region: PRK00007 696125002928 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 696125002929 G1 box; other site 696125002930 putative GEF interaction site [polypeptide binding]; other site 696125002931 GTP/Mg2+ binding site [chemical binding]; other site 696125002932 Switch I region; other site 696125002933 G2 box; other site 696125002934 G3 box; other site 696125002935 Switch II region; other site 696125002936 G4 box; other site 696125002937 G5 box; other site 696125002938 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 696125002939 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 696125002940 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 696125002941 30S ribosomal protein S7; Validated; Region: PRK05302 696125002942 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 696125002943 S17 interaction site [polypeptide binding]; other site 696125002944 S8 interaction site; other site 696125002945 16S rRNA interaction site [nucleotide binding]; other site 696125002946 streptomycin interaction site [chemical binding]; other site 696125002947 23S rRNA interaction site [nucleotide binding]; other site 696125002948 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 696125002949 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 696125002950 putative catalytic site [active] 696125002951 putative phosphate binding site [ion binding]; other site 696125002952 active site 696125002953 metal binding site A [ion binding]; metal-binding site 696125002954 DNA binding site [nucleotide binding] 696125002955 putative AP binding site [nucleotide binding]; other site 696125002956 putative metal binding site B [ion binding]; other site 696125002957 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 696125002958 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 696125002959 substrate binding pocket [chemical binding]; other site 696125002960 membrane-bound complex binding site; other site 696125002961 hinge residues; other site 696125002962 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 696125002963 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 696125002964 dimer interface [polypeptide binding]; other site 696125002965 conserved gate region; other site 696125002966 putative PBP binding loops; other site 696125002967 ABC-ATPase subunit interface; other site 696125002968 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 696125002969 dimer interface [polypeptide binding]; other site 696125002970 conserved gate region; other site 696125002971 putative PBP binding loops; other site 696125002972 ABC-ATPase subunit interface; other site 696125002973 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 696125002974 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 696125002975 Walker A/P-loop; other site 696125002976 ATP binding site [chemical binding]; other site 696125002977 Q-loop/lid; other site 696125002978 ABC transporter signature motif; other site 696125002979 Walker B; other site 696125002980 D-loop; other site 696125002981 H-loop/switch region; other site 696125002982 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 696125002983 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 696125002984 HIGH motif; other site 696125002985 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 696125002986 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 696125002987 active site 696125002988 KMSKS motif; other site 696125002989 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 696125002990 tRNA binding surface [nucleotide binding]; other site 696125002991 anticodon binding site; other site 696125002992 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 696125002993 Protein of unknown function (DUF2497); Region: DUF2497; pfam10691 696125002994 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 696125002995 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 696125002996 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 696125002997 S-adenosylmethionine binding site [chemical binding]; other site 696125002998 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 696125002999 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 696125003000 ATP binding site [chemical binding]; other site 696125003001 Mg++ binding site [ion binding]; other site 696125003002 motif III; other site 696125003003 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 696125003004 nucleotide binding region [chemical binding]; other site 696125003005 ATP-binding site [chemical binding]; other site 696125003006 YopJ Serine/Threonine acetyltransferase; Region: YopJ; cl07849 696125003007 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 696125003008 Fic/DOC family; Region: Fic; cl00960 696125003009 YopJ Serine/Threonine acetyltransferase; Region: YopJ; cl07849 696125003010 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 696125003011 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 696125003012 active site 696125003013 hydrophilic channel; other site 696125003014 dimerization interface [polypeptide binding]; other site 696125003015 catalytic residues [active] 696125003016 active site lid [active] 696125003017 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 696125003018 AAA domain; Region: AAA_30; pfam13604 696125003019 Family description; Region: UvrD_C_2; pfam13538 696125003020 acetolactate synthase large subunit 696125003021 acetolactate synthase large subunit 696125003022 acetolactate synthase large subunit 696125003023 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 696125003024 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 696125003025 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 696125003026 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 696125003027 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 696125003028 protein binding site [polypeptide binding]; other site 696125003029 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 696125003030 protein binding site [polypeptide binding]; other site 696125003031 HflC protein; Region: hflC; TIGR01932 696125003032 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 696125003033 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 696125003034 HflK protein; Region: hflK; TIGR01933 696125003035 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 696125003036 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 696125003037 folate binding site [chemical binding]; other site 696125003038 NADP+ binding site [chemical binding]; other site 696125003039 thymidylate synthase; Reviewed; Region: thyA; PRK01827 696125003040 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 696125003041 dimerization interface [polypeptide binding]; other site 696125003042 active site 696125003043 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 696125003044 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 696125003045 putative substrate translocation pore; other site 696125003046 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 696125003047 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 696125003048 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 696125003049 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 696125003050 Part of AAA domain; Region: AAA_19; pfam13245 696125003051 Family description; Region: UvrD_C_2; pfam13538 696125003052 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 696125003053 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 696125003054 putative trimer interface [polypeptide binding]; other site 696125003055 putative CoA binding site [chemical binding]; other site 696125003056 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 696125003057 putative trimer interface [polypeptide binding]; other site 696125003058 putative CoA binding site [chemical binding]; other site 696125003059 UDP-3-O-[3-hydroxymyristoyl]; Region: LpxD; COG1044 696125003060 acyl-[acyl-carrier-protein]--UDP-N- acetylglucosamine O-acyltransferase; Region: lipid_A_lpxA; TIGR01852 696125003061 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 696125003062 putative trimer interface [polypeptide binding]; other site 696125003063 putative CoA binding site [chemical binding]; other site 696125003064 UDP-3-O-[3-hydroxymyristoyl]; Region: LpxD; COG1044 696125003065 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 696125003066 putative trimer interface [polypeptide binding]; other site 696125003067 putative CoA binding site [chemical binding]; other site 696125003068 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 696125003069 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 696125003070 Cu(I) binding site [ion binding]; other site 696125003071 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 696125003072 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 696125003073 S-adenosylmethionine binding site [chemical binding]; other site 696125003074 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 696125003075 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 696125003076 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 696125003077 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 696125003078 active site 696125003079 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 696125003080 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 696125003081 Autotransporter beta-domain; Region: Autotransporter; smart00869 696125003082 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 696125003083 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 696125003084 nucleotide binding pocket [chemical binding]; other site 696125003085 K-X-D-G motif; other site 696125003086 catalytic site [active] 696125003087 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 696125003088 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 696125003089 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 696125003090 Dimer interface [polypeptide binding]; other site 696125003091 BRCT sequence motif; other site 696125003092 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 696125003093 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 696125003094 Walker A/P-loop; other site 696125003095 ATP binding site [chemical binding]; other site 696125003096 Q-loop/lid; other site 696125003097 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 696125003098 Q-loop/lid; other site 696125003099 ABC transporter signature motif; other site 696125003100 Walker B; other site 696125003101 D-loop; other site 696125003102 H-loop/switch region; other site 696125003103 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 696125003104 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 696125003105 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 696125003106 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 696125003107 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 696125003108 nucleotide binding site [chemical binding]; other site 696125003109 SulA interaction site; other site 696125003110 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 696125003111 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 696125003112 Cell division protein FtsA; Region: FtsA; smart00842 696125003113 Cell division protein FtsA; Region: FtsA; pfam14450 696125003114 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 696125003115 Cell division protein FtsQ; Region: FtsQ; pfam03799 696125003116 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 696125003117 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 696125003118 ATP-grasp domain; Region: ATP-grasp_4; cl17255 696125003119 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 696125003120 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 696125003121 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 696125003122 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 696125003123 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 696125003124 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 696125003125 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 696125003126 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 696125003127 active site 696125003128 homodimer interface [polypeptide binding]; other site 696125003129 cell division protein FtsW; Region: ftsW; TIGR02614 696125003130 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 696125003131 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 696125003132 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 696125003133 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 696125003134 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 696125003135 Mg++ binding site [ion binding]; other site 696125003136 putative catalytic motif [active] 696125003137 putative substrate binding site [chemical binding]; other site 696125003138 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 696125003139 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 696125003140 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 696125003141 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 696125003142 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 696125003143 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 696125003144 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 696125003145 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 696125003146 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 696125003147 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 696125003148 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 696125003149 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 696125003150 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 696125003151 S-adenosylmethionine binding site [chemical binding]; other site 696125003152 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 696125003153 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 696125003154 N-acetyl-D-glucosamine binding site [chemical binding]; other site 696125003155 catalytic residue [active] 696125003156 Uncharacterized conserved protein [Function unknown]; Region: COG5586 696125003157 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 696125003158 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 696125003159 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 696125003160 ABC transporter; Region: ABC_tran_2; pfam12848 696125003161 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 696125003162 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 696125003163 Isochorismatase family; Region: Isochorismatase; pfam00857 696125003164 catalytic triad [active] 696125003165 metal binding site [ion binding]; metal-binding site 696125003166 conserved cis-peptide bond; other site 696125003167 hypothetical protein; Provisional; Region: PRK14013 696125003168 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 696125003169 non-specific DNA binding site [nucleotide binding]; other site 696125003170 salt bridge; other site 696125003171 sequence-specific DNA binding site [nucleotide binding]; other site 696125003172 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 696125003173 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 696125003174 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 696125003175 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 696125003176 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cd00253 696125003177 Autotransporter beta-domain; Region: Autotransporter; smart00869 696125003178 Creatinine amidohydrolase; Region: Creatininase; pfam02633 696125003179 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 696125003180 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 696125003181 P-loop, Walker A motif; other site 696125003182 Base recognition motif; other site 696125003183 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 696125003184 FOG: WD40 repeat [General function prediction only]; Region: COG2319 696125003185 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 696125003186 structural tetrad; other site 696125003187 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 696125003188 Autotransporter beta-domain; Region: Autotransporter; smart00869 696125003189 Phytoene/squalene synthetase [Lipid metabolism]; Region: ERG9; COG1562 696125003190 substrate binding pocket [chemical binding]; other site 696125003191 substrate-Mg2+ binding site; other site 696125003192 aspartate-rich region 1; other site 696125003193 aspartate-rich region 2; other site 696125003194 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 696125003195 Preprotein translocase subunit; Region: YajC; pfam02699 696125003196 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 696125003197 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 696125003198 Peptidase family M23; Region: Peptidase_M23; pfam01551 696125003199 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 696125003200 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 696125003201 S-adenosylmethionine binding site [chemical binding]; other site 696125003202 Fic/DOC family; Region: Fic; cl00960 696125003203 effector protein;Evidence 7 : Gene remnant; Product type f : factor 696125003204 Dtr system oriT relaxase; Provisional; Region: PRK13826 696125003205 seryl-tRNA synthetase; Provisional; Region: PRK05431 696125003206 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 696125003207 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 696125003208 dimer interface [polypeptide binding]; other site 696125003209 active site 696125003210 motif 1; other site 696125003211 motif 2; other site 696125003212 motif 3; other site 696125003213 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 696125003214 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 696125003215 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 696125003216 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 696125003217 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 696125003218 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 696125003219 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 696125003220 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 696125003221 tandem repeat interface [polypeptide binding]; other site 696125003222 oligomer interface [polypeptide binding]; other site 696125003223 active site residues [active] 696125003224 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 696125003225 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 696125003226 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 696125003227 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 696125003228 substrate binding pocket [chemical binding]; other site 696125003229 chain length determination region; other site 696125003230 substrate-Mg2+ binding site; other site 696125003231 catalytic residues [active] 696125003232 aspartate-rich region 1; other site 696125003233 active site lid residues [active] 696125003234 aspartate-rich region 2; other site 696125003235 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 696125003236 binding surface 696125003237 TPR motif; other site 696125003238 Tetratricopeptide repeat; Region: TPR_16; pfam13432 696125003239 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 696125003240 binding surface 696125003241 TPR motif; other site 696125003242 TPR repeat; Region: TPR_11; pfam13414 696125003243 TPR repeat; Region: TPR_11; pfam13414 696125003244 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 696125003245 binding surface 696125003246 TPR motif; other site 696125003247 TPR repeat; Region: TPR_11; pfam13414 696125003248 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 696125003249 dimer interface [polypeptide binding]; other site 696125003250 motif 1; other site 696125003251 active site 696125003252 motif 2; other site 696125003253 motif 3; other site 696125003254 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 696125003255 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 696125003256 nucleic acid binding site [nucleotide binding]; other site 696125003257 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 696125003258 Methyltransferase domain; Region: Methyltransf_23; pfam13489 696125003259 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 696125003260 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 696125003261 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 696125003262 GSH binding site [chemical binding]; other site 696125003263 catalytic residues [active] 696125003264 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 696125003265 Methyltransferase domain; Region: Methyltransf_11; pfam08241 696125003266 aspartate kinase; Reviewed; Region: PRK06635 696125003267 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 696125003268 putative nucleotide binding site [chemical binding]; other site 696125003269 putative catalytic residues [active] 696125003270 putative Mg ion binding site [ion binding]; other site 696125003271 putative aspartate binding site [chemical binding]; other site 696125003272 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 696125003273 putative allosteric regulatory site; other site 696125003274 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 696125003275 putative allosteric regulatory residue; other site 696125003276 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 696125003277 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 696125003278 transmembrane helices; other site 696125003279 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 696125003280 TrkA-C domain; Region: TrkA_C; pfam02080 696125003281 TrkA-C domain; Region: TrkA_C; pfam02080 696125003282 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 696125003283 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 696125003284 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 696125003285 GTP-binding protein Der; Reviewed; Region: PRK00093 696125003286 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 696125003287 G1 box; other site 696125003288 GTP/Mg2+ binding site [chemical binding]; other site 696125003289 Switch I region; other site 696125003290 G2 box; other site 696125003291 Switch II region; other site 696125003292 G3 box; other site 696125003293 G4 box; other site 696125003294 G5 box; other site 696125003295 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 696125003296 G1 box; other site 696125003297 GTP/Mg2+ binding site [chemical binding]; other site 696125003298 Switch I region; other site 696125003299 G2 box; other site 696125003300 G3 box; other site 696125003301 Switch II region; other site 696125003302 G4 box; other site 696125003303 G5 box; other site 696125003304 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 696125003305 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 696125003306 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 696125003307 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 696125003308 F0F1 ATP synthase subunit B'; Validated; Region: PRK09174 696125003309 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 696125003310 F0F1 ATP synthase subunit B; Validated; Region: PRK09173 696125003311 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 696125003312 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 696125003313 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 696125003314 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 696125003315 active site 696125003316 8-oxo-dGMP binding site [chemical binding]; other site 696125003317 nudix motif; other site 696125003318 metal binding site [ion binding]; metal-binding site 696125003319 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 696125003320 heterotetramer interface [polypeptide binding]; other site 696125003321 active site pocket [active] 696125003322 cleavage site 696125003323 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03002 696125003324 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 696125003325 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 696125003326 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 696125003327 SEC-C motif; Region: SEC-C; pfam02810 696125003328 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 696125003329 metal binding site 2 [ion binding]; metal-binding site 696125003330 putative DNA binding helix; other site 696125003331 metal binding site 1 [ion binding]; metal-binding site 696125003332 dimer interface [polypeptide binding]; other site 696125003333 structural Zn2+ binding site [ion binding]; other site 696125003334 peptide chain release factor 1; Validated; Region: prfA; PRK00591 696125003335 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 696125003336 This domain is found in peptide chain release factors; Region: PCRF; smart00937 696125003337 RF-1 domain; Region: RF-1; pfam00472 696125003338 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 696125003339 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 696125003340 S-adenosylmethionine binding site [chemical binding]; other site 696125003341 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 696125003342 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 696125003343 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 696125003344 dimer interface [polypeptide binding]; other site 696125003345 putative radical transfer pathway; other site 696125003346 diiron center [ion binding]; other site 696125003347 tyrosyl radical; other site 696125003348 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 696125003349 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 696125003350 Class I ribonucleotide reductase; Region: RNR_I; cd01679 696125003351 active site 696125003352 dimer interface [polypeptide binding]; other site 696125003353 catalytic residues [active] 696125003354 effector binding site; other site 696125003355 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 696125003356 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 696125003357 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 696125003358 catalytic residues [active] 696125003359 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 696125003360 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 696125003361 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 696125003362 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 696125003363 ABC-ATPase subunit interface; other site 696125003364 dimer interface [polypeptide binding]; other site 696125003365 putative PBP binding regions; other site 696125003366 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 696125003367 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 696125003368 metal binding site [ion binding]; metal-binding site 696125003369 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 696125003370 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 696125003371 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 696125003372 dimer interface [polypeptide binding]; other site 696125003373 conserved gate region; other site 696125003374 putative PBP binding loops; other site 696125003375 ABC-ATPase subunit interface; other site 696125003376 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 696125003377 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 696125003378 dimer interface [polypeptide binding]; other site 696125003379 conserved gate region; other site 696125003380 putative PBP binding loops; other site 696125003381 ABC-ATPase subunit interface; other site 696125003382 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 696125003383 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 696125003384 Walker A/P-loop; other site 696125003385 ATP binding site [chemical binding]; other site 696125003386 Q-loop/lid; other site 696125003387 ABC transporter signature motif; other site 696125003388 Walker B; other site 696125003389 D-loop; other site 696125003390 H-loop/switch region; other site 696125003391 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 696125003392 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 696125003393 active site 696125003394 catalytic site [active] 696125003395 metal binding site [ion binding]; metal-binding site 696125003396 GMP synthase; Reviewed; Region: guaA; PRK00074 696125003397 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 696125003398 AMP/PPi binding site [chemical binding]; other site 696125003399 candidate oxyanion hole; other site 696125003400 catalytic triad [active] 696125003401 potential glutamine specificity residues [chemical binding]; other site 696125003402 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 696125003403 ATP Binding subdomain [chemical binding]; other site 696125003404 Ligand Binding sites [chemical binding]; other site 696125003405 Dimerization subdomain; other site 696125003406 16S rRNA methyltransferase B; Provisional; Region: PRK14902 696125003407 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 696125003408 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 696125003409 Ligand Binding Site [chemical binding]; other site 696125003410 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 696125003411 Ligand Binding Site [chemical binding]; other site 696125003412 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 696125003413 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 696125003414 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 696125003415 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 696125003416 active site 696125003417 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 696125003418 PLD-like domain; Region: PLDc_2; pfam13091 696125003419 putative active site [active] 696125003420 catalytic site [active] 696125003421 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 696125003422 PLD-like domain; Region: PLDc_2; pfam13091 696125003423 putative active site [active] 696125003424 catalytic site [active] 696125003425 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 696125003426 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 696125003427 active site 696125003428 phosphorylation site [posttranslational modification] 696125003429 intermolecular recognition site; other site 696125003430 dimerization interface [polypeptide binding]; other site 696125003431 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 696125003432 Walker A motif; other site 696125003433 ATP binding site [chemical binding]; other site 696125003434 Walker B motif; other site 696125003435 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 696125003436 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 696125003437 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 696125003438 putative active site [active] 696125003439 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 696125003440 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 696125003441 active site 696125003442 tetramer interface; other site 696125003443 Transglycosylase SLT domain; Region: SLT_2; pfam13406 696125003444 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 696125003445 N-acetyl-D-glucosamine binding site [chemical binding]; other site 696125003446 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 696125003447 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 696125003448 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 696125003449 active site 696125003450 Zn binding site [ion binding]; other site 696125003451 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 696125003452 MgtE intracellular N domain; Region: MgtE_N; pfam03448 696125003453 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 696125003454 Divalent cation transporter; Region: MgtE; pfam01769 696125003455 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 696125003456 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 696125003457 G1 box; other site 696125003458 putative GEF interaction site [polypeptide binding]; other site 696125003459 GTP/Mg2+ binding site [chemical binding]; other site 696125003460 Switch I region; other site 696125003461 G2 box; other site 696125003462 G3 box; other site 696125003463 Switch II region; other site 696125003464 G4 box; other site 696125003465 G5 box; other site 696125003466 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 696125003467 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 696125003468 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 696125003469 dimer interface [polypeptide binding]; other site 696125003470 substrate binding site [chemical binding]; other site 696125003471 metal binding sites [ion binding]; metal-binding site 696125003472 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 696125003473 YGGT family; Region: YGGT; pfam02325 696125003474 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 696125003475 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 696125003476 putative active site [active] 696125003477 Ap4A binding site [chemical binding]; other site 696125003478 nudix motif; other site 696125003479 putative metal binding site [ion binding]; other site 696125003480 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 696125003481 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 696125003482 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 696125003483 protein binding site [polypeptide binding]; other site 696125003484 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 696125003485 Catalytic dyad [active] 696125003486 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 696125003487 Peptidase family M23; Region: Peptidase_M23; pfam01551 696125003488 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 696125003489 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 696125003490 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 696125003491 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 696125003492 active site 696125003493 (T/H)XGH motif; other site 696125003494 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 696125003495 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 696125003496 putative catalytic cysteine [active] 696125003497 gamma-glutamyl kinase; Provisional; Region: PRK05429 696125003498 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 696125003499 nucleotide binding site [chemical binding]; other site 696125003500 homotetrameric interface [polypeptide binding]; other site 696125003501 putative phosphate binding site [ion binding]; other site 696125003502 putative allosteric binding site; other site 696125003503 PUA domain; Region: PUA; pfam01472 696125003504 GTPase CgtA; Reviewed; Region: obgE; PRK12299 696125003505 GTP1/OBG; Region: GTP1_OBG; pfam01018 696125003506 Obg GTPase; Region: Obg; cd01898 696125003507 G1 box; other site 696125003508 GTP/Mg2+ binding site [chemical binding]; other site 696125003509 Switch I region; other site 696125003510 G2 box; other site 696125003511 G3 box; other site 696125003512 Switch II region; other site 696125003513 G4 box; other site 696125003514 G5 box; other site 696125003515 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 696125003516 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 696125003517 S-adenosylmethionine binding site [chemical binding]; other site 696125003518 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 696125003519 potential frameshift: common BLAST hit: gi|240849819|ref|YP_002971207.1| surface protein/adhesin 696125003520 YadA-like C-terminal region; Region: YadA; pfam03895 696125003521 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 696125003522 trimer interface [polypeptide binding]; other site 696125003523 Haemagglutinin; Region: HIM; pfam05662 696125003524 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 696125003525 trimer interface [polypeptide binding]; other site 696125003526 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 696125003527 Haemagglutinin; Region: HIM; pfam05662 696125003528 YadA-like C-terminal region; Region: YadA; pfam03895 696125003529 YopJ Serine/Threonine acetyltransferase; Region: YopJ; cl07849 696125003530 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 696125003531 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 696125003532 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 696125003533 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 696125003534 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 696125003535 amidase catalytic site [active] 696125003536 Zn binding residues [ion binding]; other site 696125003537 substrate binding site [chemical binding]; other site 696125003538 putative membrane protein, TIGR04086 family; Region: TIGR04086_membr 696125003539 potential protein location (protein of unknown function [Bartonella clarridgeiae 73]) that overlaps RNA (ribosomal RNA 23s ribosomal RNA) 696125003540 potential protein location (protein of unknown function [Bartonella clarridgeiae 73]) that overlaps RNA (ribosomal RNA 16s ribosomal RNA) 696125003541 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 696125003542 metal binding site 2 [ion binding]; metal-binding site 696125003543 putative DNA binding helix; other site 696125003544 metal binding site 1 [ion binding]; metal-binding site 696125003545 dimer interface [polypeptide binding]; other site 696125003546 structural Zn2+ binding site [ion binding]; other site 696125003547 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 696125003548 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 696125003549 HlyD family secretion protein; Region: HlyD_3; pfam13437 696125003550 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 696125003551 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 696125003552 putative substrate translocation pore; other site 696125003553 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 696125003554 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 696125003555 Coenzyme A binding pocket [chemical binding]; other site 696125003556 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 696125003557 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 696125003558 dimer interface [polypeptide binding]; other site 696125003559 active site 696125003560 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 696125003561 catalytic residues [active] 696125003562 substrate binding site [chemical binding]; other site 696125003563 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 696125003564 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 696125003565 active site residue [active] 696125003566 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 696125003567 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 696125003568 FAD binding pocket [chemical binding]; other site 696125003569 FAD binding motif [chemical binding]; other site 696125003570 phosphate binding motif [ion binding]; other site 696125003571 beta-alpha-beta structure motif; other site 696125003572 NAD binding pocket [chemical binding]; other site 696125003573 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 696125003574 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 696125003575 PhnA protein; Region: PhnA; pfam03831 696125003576 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 696125003577 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 696125003578 ring oligomerisation interface [polypeptide binding]; other site 696125003579 ATP/Mg binding site [chemical binding]; other site 696125003580 stacking interactions; other site 696125003581 hinge regions; other site 696125003582 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 696125003583 oligomerisation interface [polypeptide binding]; other site 696125003584 mobile loop; other site 696125003585 roof hairpin; other site 696125003586 fumarate hydratase; Reviewed; Region: fumC; PRK00485 696125003587 Class II fumarases; Region: Fumarase_classII; cd01362 696125003588 active site 696125003589 tetramer interface [polypeptide binding]; other site 696125003590 phosphoglucomutase; Region: PLN02307 696125003591 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction; Region: PGM1; cd03085 696125003592 substrate binding site [chemical binding]; other site 696125003593 dimer interface [polypeptide binding]; other site 696125003594 active site 696125003595 metal binding site [ion binding]; metal-binding site 696125003596 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 696125003597 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 696125003598 catalytic triad [active] 696125003599 dimer interface [polypeptide binding]; other site 696125003600 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 696125003601 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 696125003602 dimer interface [polypeptide binding]; other site 696125003603 motif 1; other site 696125003604 active site 696125003605 motif 2; other site 696125003606 motif 3; other site 696125003607 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 696125003608 anticodon binding site; other site 696125003609 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 696125003610 putative membrane protein, TIGR04086 family; Region: TIGR04086_membr 696125003611 potential protein location (protein of unknown function [Bartonella clarridgeiae 73]) that overlaps RNA (ribosomal RNA 23s ribosomal RNA) 696125003612 potential protein location (protein of unknown function [Bartonella clarridgeiae 73]) that overlaps RNA (ribosomal RNA 16s ribosomal RNA) 696125003613 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 696125003614 Peptidase family M23; Region: Peptidase_M23; pfam01551 696125003615 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 696125003616 Histidine kinase; Region: HisKA_2; pfam07568 696125003617 RNA polymerase sigma factor; Provisional; Region: PRK12547 696125003618 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 696125003619 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 696125003620 DNA binding residues [nucleotide binding] 696125003621 two-component response regulator; Provisional; Region: PRK09191 696125003622 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 696125003623 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 696125003624 active site 696125003625 phosphorylation site [posttranslational modification] 696125003626 intermolecular recognition site; other site 696125003627 dimerization interface [polypeptide binding]; other site 696125003628 PAS fold; Region: PAS_4; pfam08448 696125003629 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 696125003630 HWE histidine kinase; Region: HWE_HK; pfam07536 696125003631 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 696125003632 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 696125003633 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 696125003634 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 696125003635 catalytic residues [active] 696125003636 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 696125003637 Phage Tail Collar Domain; Region: Collar; pfam07484 696125003638 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 696125003639 Phage terminase large subunit; Region: Terminase_3; cl12054 696125003640 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 696125003641 Clp amino terminal domain; Region: Clp_N; pfam02861 696125003642 Clp amino terminal domain; Region: Clp_N; pfam02861 696125003643 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 696125003644 Walker A motif; other site 696125003645 ATP binding site [chemical binding]; other site 696125003646 Walker B motif; other site 696125003647 arginine finger; other site 696125003648 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 696125003649 Walker A motif; other site 696125003650 ATP binding site [chemical binding]; other site 696125003651 Walker B motif; other site 696125003652 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 696125003653 zinc-binding protein; Provisional; Region: PRK01343 696125003654 Maf-like protein; Region: Maf; pfam02545 696125003655 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 696125003656 active site 696125003657 dimer interface [polypeptide binding]; other site 696125003658 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 696125003659 rRNA binding site [nucleotide binding]; other site 696125003660 predicted 30S ribosome binding site; other site 696125003661 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 696125003662 phosphoribosylaminoimidazole carboxylase, PurK protein; Region: purK; TIGR01161 696125003663 ATP-grasp domain; Region: ATP-grasp; pfam02222 696125003664 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 696125003665 TPR repeat; Region: TPR_11; pfam13414 696125003666 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 696125003667 TPR motif; other site 696125003668 TPR repeat; Region: TPR_11; pfam13414 696125003669 binding surface 696125003670 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 696125003671 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 696125003672 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 696125003673 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 696125003674 putative active site [active] 696125003675 metal binding site [ion binding]; metal-binding site 696125003676 homodimer binding site [polypeptide binding]; other site 696125003677 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 696125003678 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 696125003679 hinge; other site 696125003680 active site 696125003681 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 696125003682 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 696125003683 non-specific DNA binding site [nucleotide binding]; other site 696125003684 salt bridge; other site 696125003685 sequence-specific DNA binding site [nucleotide binding]; other site 696125003686 Protein of unknown function (DUF1376); Region: DUF1376; pfam07120 696125003687 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 696125003688 active site 696125003689 metal binding site [ion binding]; metal-binding site 696125003690 interdomain interaction site; other site 696125003691 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 696125003692 AAA domain; Region: AAA_25; pfam13481 696125003693 Walker A motif; other site 696125003694 ATP binding site [chemical binding]; other site 696125003695 Walker B motif; other site 696125003696 Predicted membrane protein [Function unknown]; Region: COG1238 696125003697 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 696125003698 Uncharacterized conserved protein [Function unknown]; Region: COG1633 696125003699 CCC1-related family of proteins; Region: CCC1_like; cl00278 696125003700 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 696125003701 trimer interface [polypeptide binding]; other site 696125003702 active site 696125003703 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 696125003704 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 696125003705 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 696125003706 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 696125003707 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 696125003708 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 696125003709 active site 696125003710 substrate binding site [chemical binding]; other site 696125003711 metal binding site [ion binding]; metal-binding site 696125003712 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 696125003713 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 696125003714 Walker A motif; other site 696125003715 ATP binding site [chemical binding]; other site 696125003716 Walker B motif; other site 696125003717 arginine finger; other site 696125003718 Peptidase family M41; Region: Peptidase_M41; pfam01434 696125003719 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 696125003720 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 696125003721 Ligand Binding Site [chemical binding]; other site 696125003722 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 696125003723 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 696125003724 ligand binding site [chemical binding]; other site 696125003725 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 696125003726 hypothetical protein; Validated; Region: PRK00110 696125003727 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 696125003728 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 696125003729 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 696125003730 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 696125003731 Walker A/P-loop; other site 696125003732 ATP binding site [chemical binding]; other site 696125003733 Q-loop/lid; other site 696125003734 ABC transporter signature motif; other site 696125003735 Walker B; other site 696125003736 D-loop; other site 696125003737 H-loop/switch region; other site 696125003738 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 696125003739 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 696125003740 active site 696125003741 dimerization interface [polypeptide binding]; other site 696125003742 elongation factor P; Validated; Region: PRK00529 696125003743 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 696125003744 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 696125003745 RNA binding site [nucleotide binding]; other site 696125003746 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 696125003747 RNA binding site [nucleotide binding]; other site 696125003748 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 696125003749 Sel1-like repeats; Region: SEL1; smart00671 696125003750 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 696125003751 active site 696125003752 thiamine phosphate binding site [chemical binding]; other site 696125003753 pyrophosphate binding site [ion binding]; other site 696125003754 OpgC protein; Region: OpgC_C; pfam10129 696125003755 Acyltransferase family; Region: Acyl_transf_3; pfam01757 696125003756 Protein of unknown function (DUF1465); Region: DUF1465; pfam07323 696125003757 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 696125003758 active site 696125003759 putative DNA-binding cleft [nucleotide binding]; other site 696125003760 dimer interface [polypeptide binding]; other site 696125003761 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 696125003762 RuvA N terminal domain; Region: RuvA_N; pfam01330 696125003763 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 696125003764 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 696125003765 Walker A motif; other site 696125003766 ATP binding site [chemical binding]; other site 696125003767 Walker B motif; other site 696125003768 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 696125003769 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 696125003770 active site 696125003771 TolQ protein; Region: tolQ; TIGR02796 696125003772 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 696125003773 TolR protein; Region: tolR; TIGR02801 696125003774 translocation protein TolB; Provisional; Region: tolB; PRK05137 696125003775 TolB amino-terminal domain; Region: TolB_N; pfam04052 696125003776 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 696125003777 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 696125003778 active site 696125003779 intersubunit interface [polypeptide binding]; other site 696125003780 catalytic residue [active] 696125003781 Phosphoglycerate kinase; Region: PGK; pfam00162 696125003782 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 696125003783 substrate binding site [chemical binding]; other site 696125003784 hinge regions; other site 696125003785 ADP binding site [chemical binding]; other site 696125003786 catalytic site [active] 696125003787 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 696125003788 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 696125003789 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 696125003790 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 696125003791 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 696125003792 TPP-binding site [chemical binding]; other site 696125003793 dimer interface [polypeptide binding]; other site 696125003794 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 696125003795 PYR/PP interface [polypeptide binding]; other site 696125003796 dimer interface [polypeptide binding]; other site 696125003797 TPP binding site [chemical binding]; other site 696125003798 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 696125003799 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 696125003800 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 696125003801 Protein of unknown function (DUF1036); Region: DUF1036; pfam06282 696125003802 hypothetical protein; Provisional; Region: PRK13694 696125003803 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 696125003804 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 696125003805 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 696125003806 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 696125003807 Thiamine pyrophosphokinase; Region: TPK; cd07995 696125003808 active site 696125003809 dimerization interface [polypeptide binding]; other site 696125003810 thiamine binding site [chemical binding]; other site 696125003811 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 696125003812 Peptidase family M48; Region: Peptidase_M48; pfam01435 696125003813 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 696125003814 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 696125003815 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 696125003816 DNA binding residues [nucleotide binding] 696125003817 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 696125003818 Ferredoxin [Energy production and conversion]; Region: COG1146 696125003819 4Fe-4S binding domain; Region: Fer4; pfam00037 696125003820 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 696125003821 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 696125003822 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 696125003823 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 696125003824 Transglycosylase; Region: Transgly; pfam00912 696125003825 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 696125003826 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 696125003827 substrate binding pocket [chemical binding]; other site 696125003828 chain length determination region; other site 696125003829 substrate-Mg2+ binding site; other site 696125003830 catalytic residues [active] 696125003831 aspartate-rich region 1; other site 696125003832 active site lid residues [active] 696125003833 aspartate-rich region 2; other site 696125003834 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 696125003835 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 696125003836 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 696125003837 hypothetical protein 696125003838 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 696125003839 hypothetical protein 696125003840 transporter 696125003841 transporter 696125003842 transporter 696125003843 potential frameshift: common BLAST hit: gi|121602382|ref|YP_988454.1| major facilitator transporter 696125003844 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK01474 696125003845 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 696125003846 gamma subunit interface [polypeptide binding]; other site 696125003847 epsilon subunit interface [polypeptide binding]; other site 696125003848 LBP interface [polypeptide binding]; other site 696125003849 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 696125003850 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 696125003851 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 696125003852 alpha subunit interaction interface [polypeptide binding]; other site 696125003853 Walker A motif; other site 696125003854 ATP binding site [chemical binding]; other site 696125003855 Walker B motif; other site 696125003856 inhibitor binding site; inhibition site 696125003857 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 696125003858 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 696125003859 core domain interface [polypeptide binding]; other site 696125003860 delta subunit interface [polypeptide binding]; other site 696125003861 epsilon subunit interface [polypeptide binding]; other site 696125003862 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 696125003863 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 696125003864 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 696125003865 beta subunit interaction interface [polypeptide binding]; other site 696125003866 Walker A motif; other site 696125003867 ATP binding site [chemical binding]; other site 696125003868 Walker B motif; other site 696125003869 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 696125003870 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 696125003871 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 696125003872 primosome assembly protein PriA; Validated; Region: PRK05580 696125003873 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 696125003874 ATP binding site [chemical binding]; other site 696125003875 putative Mg++ binding site [ion binding]; other site 696125003876 helicase superfamily c-terminal domain; Region: HELICc; smart00490 696125003877 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 696125003878 active site 696125003879 intersubunit interactions; other site 696125003880 catalytic residue [active] 696125003881 Lipopolysaccharide-assembly; Region: LptE; cl01125 696125003882 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 696125003883 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 696125003884 HIGH motif; other site 696125003885 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 696125003886 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 696125003887 active site 696125003888 KMSKS motif; other site 696125003889 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 696125003890 tRNA binding surface [nucleotide binding]; other site 696125003891 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 696125003892 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 696125003893 catalytic residue [active] 696125003894 acetyl-CoA synthetase 696125003895 acetyl-CoA synthetase 696125003897 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 696125003898 acetyl-CoA synthetase 696125003899 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 696125003900 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 696125003901 Walker A/P-loop; other site 696125003902 ATP binding site [chemical binding]; other site 696125003903 Q-loop/lid; other site 696125003904 ABC transporter signature motif; other site 696125003905 Walker B; other site 696125003906 D-loop; other site 696125003907 H-loop/switch region; other site 696125003908 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 696125003909 Uncharacterized conserved protein [Function unknown]; Region: COG1434 696125003910 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 696125003911 putative active site [active] 696125003912 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 696125003913 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 696125003914 Walker A/P-loop; other site 696125003915 ATP binding site [chemical binding]; other site 696125003916 Q-loop/lid; other site 696125003917 ABC transporter signature motif; other site 696125003918 Walker B; other site 696125003919 D-loop; other site 696125003920 H-loop/switch region; other site 696125003921 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 696125003922 FtsX-like permease family; Region: FtsX; pfam02687 696125003923 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 696125003924 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 696125003925 HlyD family secretion protein; Region: HlyD_3; pfam13437 696125003926 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 696125003927 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 696125003928 putative catalytic site [active] 696125003929 putative phosphate binding site [ion binding]; other site 696125003930 active site 696125003931 metal binding site A [ion binding]; metal-binding site 696125003932 DNA binding site [nucleotide binding] 696125003933 putative AP binding site [nucleotide binding]; other site 696125003934 putative metal binding site B [ion binding]; other site 696125003935 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 696125003936 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 696125003937 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 696125003938 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 696125003939 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 696125003940 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 696125003941 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 696125003942 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 696125003943 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 696125003944 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 696125003945 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 696125003946 L-aspartate oxidase; Provisional; Region: PRK06175 696125003947 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 696125003948 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 696125003949 putative SdhC subunit interface [polypeptide binding]; other site 696125003950 putative proximal heme binding site [chemical binding]; other site 696125003951 putative Iron-sulfur protein interface [polypeptide binding]; other site 696125003952 putative proximal quinone binding site; other site 696125003953 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 696125003954 Iron-sulfur protein interface; other site 696125003955 proximal quinone binding site [chemical binding]; other site 696125003956 SdhD (CybS) interface [polypeptide binding]; other site 696125003957 proximal heme binding site [chemical binding]; other site 696125003958 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 696125003959 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 696125003960 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 696125003961 RimM N-terminal domain; Region: RimM; pfam01782 696125003962 PRC-barrel domain; Region: PRC; pfam05239 696125003963 SapC; Region: SapC; pfam07277 696125003964 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 696125003965 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 696125003966 active site 696125003967 DNA binding site [nucleotide binding] 696125003968 Int/Topo IB signature motif; other site 696125003969 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 696125003970 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 696125003971 HSP70 interaction site [polypeptide binding]; other site 696125003972 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 696125003973 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 696125003974 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 696125003975 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 696125003976 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 696125003977 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 696125003978 metal ion-dependent adhesion site (MIDAS); other site 696125003979 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 696125003980 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 696125003981 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 696125003982 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 696125003983 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 696125003984 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 696125003985 purine monophosphate binding site [chemical binding]; other site 696125003986 dimer interface [polypeptide binding]; other site 696125003987 putative catalytic residues [active] 696125003988 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 696125003989 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 696125003990 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 696125003991 NusB family; Region: NusB; pfam01029 696125003992 putative RNA binding site [nucleotide binding]; other site 696125003993 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 696125003994 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 696125003995 S-adenosylmethionine binding site [chemical binding]; other site 696125003996 heat shock protein HtpX; Provisional; Region: PRK01345 696125003997 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 696125003998 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 696125003999 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 696125004000 Chorismate mutase type II; Region: CM_2; cl00693 696125004001 signal recognition particle protein; Provisional; Region: PRK10867 696125004002 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 696125004003 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 696125004004 P loop; other site 696125004005 GTP binding site [chemical binding]; other site 696125004006 Signal peptide binding domain; Region: SRP_SPB; pfam02978 696125004007 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_cladeB; cd00884 696125004008 active site clefts [active] 696125004009 zinc binding site [ion binding]; other site 696125004010 dimer interface [polypeptide binding]; other site 696125004011 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 696125004012 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 696125004013 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 696125004014 catalytic triad [active] 696125004015 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 696125004016 HemY protein N-terminus; Region: HemY_N; pfam07219 696125004017 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 696125004018 TPR motif; other site 696125004019 binding surface 696125004020 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 696125004021 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 696125004022 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 696125004023 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 696125004024 catalytic residues [active] 696125004025 argininosuccinate lyase; Provisional; Region: PRK00855 696125004026 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 696125004027 active sites [active] 696125004028 tetramer interface [polypeptide binding]; other site 696125004029 diaminopimelate decarboxylase; Region: lysA; TIGR01048 696125004030 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 696125004031 active site 696125004032 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 696125004033 substrate binding site [chemical binding]; other site 696125004034 catalytic residues [active] 696125004035 dimer interface [polypeptide binding]; other site 696125004036 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 696125004037 Methyltransferase domain; Region: Methyltransf_23; pfam13489 696125004038 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 696125004039 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 696125004040 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 696125004041 active site 696125004042 phosphorylation site [posttranslational modification] 696125004043 intermolecular recognition site; other site 696125004044 dimerization interface [polypeptide binding]; other site 696125004045 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 696125004046 DNA binding site [nucleotide binding] 696125004047 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 696125004048 EVE domain; Region: EVE; cl00728 696125004049 UGMP family protein; Validated; Region: PRK09604 696125004050 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 696125004051 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 696125004052 putative trimer interface [polypeptide binding]; other site 696125004053 putative CoA binding site [chemical binding]; other site 696125004054 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 696125004055 putative trimer interface [polypeptide binding]; other site 696125004056 putative CoA binding site [chemical binding]; other site 696125004057 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 696125004058 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 696125004059 phosphomethylpyrimidine kinase 696125004060 phosphomethylpyrimidine kinase 696125004061 phosphomethylpyrimidine kinase 696125004062 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 696125004063 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 696125004064 putative acyl-acceptor binding pocket; other site 696125004065 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 696125004066 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 696125004067 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 696125004068 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 696125004069 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 696125004070 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 696125004071 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 696125004072 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 696125004073 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 696125004074 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 696125004075 active site 696125004076 DNA binding site [nucleotide binding] 696125004077 Int/Topo IB signature motif; other site 696125004078 potential frameshift: common BLAST hit: gi|240851371|ref|YP_002972774.1| shikimate kinase 696125004079 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 696125004080 ADP binding site [chemical binding]; other site 696125004081 magnesium binding site [ion binding]; other site 696125004082 shikimate kinase; Provisional; Region: PRK13946 696125004083 3-dehydroquinate synthase 696125004085 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 696125004089 multicomponent K+:H+ antiporter subunit C 696125004090 multicomponent K+:H+ antiporter subunit A 696125004091 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 696125004092 multicomponent K+:H+ antiporter subunit A 696125004093 multicomponent K+:H+ antiporter subunit A 696125004094 BA14K-like protein; Region: BA14K; pfam07886 696125004095 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 696125004096 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 696125004097 dimer interface [polypeptide binding]; other site 696125004098 active site 696125004099 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 696125004100 catalytic residues [active] 696125004101 substrate binding site [chemical binding]; other site 696125004102 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 696125004103 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 696125004104 NAD(P) binding pocket [chemical binding]; other site 696125004105 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 696125004106 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 696125004107 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 696125004108 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 696125004109 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 696125004110 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 696125004111 E3 interaction surface; other site 696125004112 lipoyl attachment site [posttranslational modification]; other site 696125004113 e3 binding domain; Region: E3_binding; pfam02817 696125004114 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 696125004115 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 696125004116 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 696125004117 TPP-binding site [chemical binding]; other site 696125004118 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 696125004119 dimer interface [polypeptide binding]; other site 696125004120 PYR/PP interface [polypeptide binding]; other site 696125004121 TPP binding site [chemical binding]; other site 696125004122 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 696125004123 CoA binding domain; Region: CoA_binding; smart00881 696125004124 CoA-ligase; Region: Ligase_CoA; pfam00549 696125004125 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 696125004126 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 696125004127 CoA-ligase; Region: Ligase_CoA; pfam00549 696125004128 malate dehydrogenase; Reviewed; Region: PRK06223 696125004129 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 696125004130 NAD(P) binding site [chemical binding]; other site 696125004131 dimer interface [polypeptide binding]; other site 696125004132 tetramer (dimer of dimers) interface [polypeptide binding]; other site 696125004133 substrate binding site [chemical binding]; other site 696125004134 Predicted ATPase [General function prediction only]; Region: COG1485 696125004135 Protease inhibitor Inh; Region: Inh; pfam02974 696125004136 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 696125004137 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 696125004138 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 696125004139 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 696125004140 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 696125004141 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 696125004142 FeS/SAM binding site; other site 696125004143 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 696125004144 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 696125004145 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 696125004146 P loop; other site 696125004147 GTP binding site [chemical binding]; other site 696125004148 intracellular septation protein A; Reviewed; Region: PRK00259 696125004149 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 696125004150 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 696125004151 ParB-like nuclease domain; Region: ParB; smart00470 696125004152 KorB domain; Region: KorB; pfam08535 696125004153 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 696125004154 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 696125004155 P-loop; other site 696125004156 Magnesium ion binding site [ion binding]; other site 696125004157 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 696125004158 Magnesium ion binding site [ion binding]; other site 696125004159 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 696125004160 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 696125004161 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 696125004162 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 696125004163 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 696125004164 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 696125004165 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 696125004166 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 696125004167 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 696125004168 GTP/Mg2+ binding site [chemical binding]; other site 696125004169 G5 box; other site 696125004170 trmE is a tRNA modification GTPase; Region: trmE; cd04164 696125004171 G1 box; other site 696125004172 G1 box; other site 696125004173 GTP/Mg2+ binding site [chemical binding]; other site 696125004174 Switch I region; other site 696125004175 G2 box; other site 696125004176 Switch II region; other site 696125004177 G3 box; other site 696125004178 G4 box; other site 696125004179 G5 box; other site 696125004180 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 696125004181 transcription termination factor Rho; Provisional; Region: rho; PRK09376 696125004182 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 696125004183 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 696125004184 RNA binding site [nucleotide binding]; other site 696125004185 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 696125004186 multimer interface [polypeptide binding]; other site 696125004187 Walker A motif; other site 696125004188 ATP binding site [chemical binding]; other site 696125004189 Walker B motif; other site